Warning: Permanently added '44.201.245.232' (ED25519) to the list of known hosts. You can reproduce this build on your computer by running: sudo dnf install copr-rpmbuild /usr/bin/copr-rpmbuild --verbose --drop-resultdir --task-url https://copr.fedorainfracloud.org/backend/get-build-task/8367662-fedora-rawhide-aarch64 --chroot fedora-rawhide-aarch64 Version: 1.2 PID: 10132 Logging PID: 10133 Task: {'allow_user_ssh': False, 'appstream': False, 'background': False, 'build_id': 8367662, 'buildroot_pkgs': [], 'chroot': 'fedora-rawhide-aarch64', 'enable_net': False, 'fedora_review': False, 'git_hash': '414efbb9ae9a5089233b69b64f4c813910a8333d', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/davidsch/sagitter/bout++', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'bout++', 'package_version': '5.2.0.dev574+ge3f21cd2f-1', 'project_dirname': 'sagitter', 'project_name': 'sagitter', 'project_owner': 'davidsch', 'repo_priority': None, 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/davidsch/sagitter/fedora-rawhide-aarch64/', 'id': 'copr_base', 'name': 'Copr repository', 'priority': None}, {'baseurl': 'https://download.copr.fedorainfracloud.org/results/sagitter/ForTesting/fedora-rawhide-aarch64/', 'id': 'copr_sagitter_ForTesting', 'name': 'Additional repo copr_sagitter_ForTesting'}], 'sandbox': 'davidsch/sagitter--davidsch', 'source_json': {}, 'source_type': None, 'ssh_public_keys': None, 'storage': 0, 'submitter': 'davidsch', 'tags': [], 'task_id': '8367662-fedora-rawhide-aarch64', 'timeout': 18000, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/davidsch/sagitter/bout++ /var/lib/copr-rpmbuild/workspace/workdir-kmtgqc96/bout++ --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/davidsch/sagitter/bout++', '/var/lib/copr-rpmbuild/workspace/workdir-kmtgqc96/bout++', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-kmtgqc96/bout++'... Running: git checkout 414efbb9ae9a5089233b69b64f4c813910a8333d -- cmd: ['git', 'checkout', '414efbb9ae9a5089233b69b64f4c813910a8333d', '--'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-kmtgqc96/bout++ rc: 0 stdout: stderr: Note: switching to '414efbb9ae9a5089233b69b64f4c813910a8333d'. You are in 'detached HEAD' state. You can look around, make experimental changes and commit them, and you can discard any commits you make in this state without impacting any branches by switching back to a branch. If you want to create a new branch to retain commits you create, you may do so (now or later) by using -c with the switch command. Example: git switch -c Or undo this operation with: git switch - Turn off this advice by setting config variable advice.detachedHead to false HEAD is now at 414efbb automatic import of bout++ Running: dist-git-client sources cmd: ['dist-git-client', 'sources'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-kmtgqc96/bout++ rc: 0 stdout: stderr: INFO: Reading stdout from command: git rev-parse --abbrev-ref HEAD INFO: Reading stdout from command: git rev-parse HEAD INFO: Reading sources specification file: sources INFO: Downloading BOUT++-v5.2.0.dev574+ge3f21cd2f.tar.xz INFO: Reading stdout from command: curl --help all INFO: Calling: curl -H Pragma: -o BOUT++-v5.2.0.dev574+ge3f21cd2f.tar.xz --location --connect-timeout 60 --retry 3 --retry-delay 10 --remote-time --show-error --fail --retry-all-errors https://copr-dist-git.fedorainfracloud.org/repo/pkgs/davidsch/sagitter/bout++/BOUT++-v5.2.0.dev574+ge3f21cd2f.tar.xz/md5/9ba4a2715a4391e6da27ac26f64eb3f4/BOUT++-v5.2.0.dev574+ge3f21cd2f.tar.xz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 12.1M 100 12.1M 0 0 300M 0 --:--:-- --:--:-- --:--:-- 303M INFO: Reading stdout from command: md5sum BOUT++-v5.2.0.dev574+ge3f21cd2f.tar.xz /usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated Running (timeout=18000): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-kmtgqc96/bout++/bout++.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-kmtgqc96/bout++ --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1733757126.396670 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 5.9 starting (python version = 3.13.0, NVR = mock-5.9-1.fc41), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-kmtgqc96/bout++/bout++.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-kmtgqc96/bout++ --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1733757126.396670 -r /var/lib/copr-rpmbuild/results/configs/child.cfg Start(bootstrap): init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish(bootstrap): init plugins Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/var/lib/copr-rpmbuild/workspace/workdir-kmtgqc96/bout++/bout++.spec) Config(fedora-rawhide-aarch64) Start: clean chroot Finish: clean chroot Mock Version: 5.9 INFO: Mock Version: 5.9 Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1733757126.396670/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata INFO: Guessed host environment type: unknown INFO: Using bootstrap image: registry.fedoraproject.org/fedora:rawhide INFO: Pulling image: registry.fedoraproject.org/fedora:rawhide INFO: Copy content of container registry.fedoraproject.org/fedora:rawhide to /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1733757126.396670/root INFO: Checking that registry.fedoraproject.org/fedora:rawhide image matches host's architecture INFO: mounting registry.fedoraproject.org/fedora:rawhide with podman image mount INFO: image registry.fedoraproject.org/fedora:rawhide as /var/lib/containers/storage/overlay/296269ed4af89e612324f17a768d3bfada6183012714895e923af08239fa2c35/merged INFO: umounting image registry.fedoraproject.org/fedora:rawhide (/var/lib/containers/storage/overlay/296269ed4af89e612324f17a768d3bfada6183012714895e923af08239fa2c35/merged) with podman image umount INFO: Package manager dnf5 detected and used (fallback) INFO: Not updating bootstrap chroot, bootstrap_image_ready=True Start(bootstrap): creating root cache Finish(bootstrap): creating root cache Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-1733757126.396670/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin INFO: Package manager dnf5 detected and used (direct choice) INFO: Buildroot is handled by package management downloaded with a bootstrap image: rpm-4.20.0-1.fc42.aarch64 rpm-sequoia-1.7.0-3.fc42.aarch64 dnf5-5.2.8.1-1.fc42.aarch64 dnf5-plugins-5.2.8.1-1.fc42.aarch64 Start: installing minimal buildroot with dnf5 Updating and loading repositories: fedora 100% | 18.3 MiB/s | 20.9 MiB | 00m01s Copr repository 100% | 202.9 KiB/s | 5.9 KiB | 00m00s Additional repo copr_sagitter_ForTesti 100% | 769.1 KiB/s | 19.2 KiB | 00m00s Repositories loaded. Package Arch Version Repository Size Installing group/module packages: bash aarch64 5.2.37-1.fc42 fedora 8.2 MiB bzip2 aarch64 1.0.8-19.fc41 fedora 427.6 KiB coreutils aarch64 9.5-11.fc42 fedora 8.1 MiB cpio aarch64 2.15-2.fc41 fedora 1.2 MiB diffutils aarch64 3.10-8.fc41 fedora 2.1 MiB fedora-release-common noarch 42-0.11 fedora 19.8 KiB findutils aarch64 1:4.10.0-4.fc41 fedora 2.1 MiB gawk aarch64 5.3.0-4.fc41 fedora 4.2 MiB glibc-minimal-langpack aarch64 2.40.9000-21.fc42 fedora 0.0 B grep aarch64 3.11-9.fc41 fedora 1.1 MiB gzip aarch64 1.13-2.fc41 fedora 488.9 KiB info aarch64 7.1.1-2.fc42 fedora 613.6 KiB patch aarch64 2.7.6-25.fc41 fedora 390.6 KiB redhat-rpm-config noarch 296-1.fc42 fedora 186.6 KiB rpm-build aarch64 4.20.0-1.fc42 fedora 1.4 MiB sed aarch64 4.9-3.fc41 fedora 1.0 MiB shadow-utils aarch64 2:4.16.0-7.fc42 fedora 5.0 MiB tar aarch64 2:1.35-4.fc41 fedora 3.1 MiB unzip aarch64 6.0-65.fc42 fedora 2.3 MiB util-linux aarch64 2.40.2-8.fc42 fedora 16.9 MiB which aarch64 2.21-42.fc41 fedora 248.2 KiB xz aarch64 1:5.6.3-2.fc42 fedora 1.5 MiB Installing dependencies: add-determinism aarch64 0.4.3-1.fc42 fedora 2.1 MiB alternatives aarch64 1.30-1.fc41 fedora 218.3 KiB ansible-srpm-macros noarch 1-16.fc41 fedora 35.7 KiB audit-libs aarch64 4.0.2-1.fc41 fedora 547.4 KiB authselect aarch64 1.5.0-8.fc42 fedora 309.5 KiB authselect-libs aarch64 1.5.0-8.fc42 fedora 931.9 KiB basesystem noarch 11-21.fc41 fedora 0.0 B binutils aarch64 2.43.50-9.fc42 fedora 29.4 MiB build-reproducibility-srpm-macros noarch 0.4.3-1.fc42 fedora 735.0 B bzip2-libs aarch64 1.0.8-19.fc41 fedora 200.7 KiB ca-certificates noarch 2024.2.69_v8.0.401-3.fc42 fedora 2.6 MiB coreutils-common aarch64 9.5-11.fc42 fedora 11.2 MiB cracklib aarch64 2.9.11-6.fc41 fedora 935.0 KiB crypto-policies noarch 20241128-1.gitbb7b0b0.fc42 fedora 137.3 KiB curl aarch64 8.10.1-2.fc42 fedora 581.3 KiB cyrus-sasl-lib aarch64 2.1.28-27.fc41 fedora 3.1 MiB debugedit aarch64 5.1-2.fc42 fedora 244.2 KiB dwz aarch64 0.15-8.fc42 fedora 386.8 KiB ed aarch64 1.20.2-2.fc41 fedora 282.8 KiB efi-srpm-macros noarch 5-13.fc42 fedora 40.2 KiB elfutils aarch64 0.192-7.fc42 fedora 3.1 MiB elfutils-debuginfod-client aarch64 0.192-7.fc42 fedora 141.3 KiB elfutils-default-yama-scope noarch 0.192-7.fc42 fedora 1.8 KiB elfutils-libelf aarch64 0.192-7.fc42 fedora 1.2 MiB elfutils-libs aarch64 0.192-7.fc42 fedora 734.9 KiB fedora-gpg-keys noarch 42-0.3 fedora 126.4 KiB fedora-release noarch 42-0.11 fedora 0.0 B fedora-release-identity-basic noarch 42-0.11 fedora 719.0 B fedora-repos noarch 42-0.3 fedora 4.9 KiB fedora-repos-rawhide noarch 42-0.3 fedora 2.2 KiB file aarch64 5.45-8.fc42 fedora 139.5 KiB file-libs aarch64 5.45-8.fc42 fedora 10.0 MiB filesystem aarch64 3.18-29.fc42 fedora 106.0 B fonts-srpm-macros noarch 1:2.0.5-17.fc41 fedora 55.8 KiB forge-srpm-macros noarch 0.4.0-1.fc42 fedora 38.9 KiB fpc-srpm-macros noarch 1.3-13.fc41 fedora 144.0 B gdb-minimal aarch64 15.2-3.fc42 fedora 13.2 MiB gdbm aarch64 1:1.23-7.fc41 fedora 928.5 KiB gdbm-libs aarch64 1:1.23-7.fc41 fedora 426.0 KiB ghc-srpm-macros noarch 1.9.2-1.fc42 fedora 779.0 B glibc aarch64 2.40.9000-21.fc42 fedora 6.1 MiB glibc-common aarch64 2.40.9000-21.fc42 fedora 1.3 MiB glibc-gconv-extra aarch64 2.40.9000-21.fc42 fedora 18.3 MiB gmp aarch64 1:6.3.0-2.fc41 fedora 722.0 KiB gnat-srpm-macros noarch 6-6.fc41 fedora 1.0 KiB go-srpm-macros noarch 3.6.0-5.fc42 fedora 60.8 KiB jansson aarch64 2.14-1.fc42 fedora 221.3 KiB json-c aarch64 0.18-1.fc42 fedora 139.2 KiB kernel-srpm-macros noarch 1.0-24.fc41 fedora 1.9 KiB keyutils-libs aarch64 1.6.3-4.fc41 fedora 226.4 KiB krb5-libs aarch64 1.21.3-3.fc42 fedora 2.6 MiB libacl aarch64 2.3.2-2.fc41 fedora 196.1 KiB libarchive aarch64 3.7.7-1.fc42 fedora 912.2 KiB libattr aarch64 2.5.2-4.fc41 fedora 196.6 KiB libblkid aarch64 2.40.2-8.fc42 fedora 418.6 KiB libbrotli aarch64 1.1.0-5.fc41 fedora 1.1 MiB libcap aarch64 2.71-1.fc42 fedora 509.8 KiB libcap-ng aarch64 0.8.5-3.fc41 fedora 417.2 KiB libcom_err aarch64 1.47.1-6.fc42 fedora 239.3 KiB libcurl aarch64 8.10.1-2.fc42 fedora 858.4 KiB libeconf aarch64 0.7.4-3.fc42 fedora 85.7 KiB libevent aarch64 2.1.12-14.fc41 fedora 1.5 MiB libfdisk aarch64 2.40.2-8.fc42 fedora 482.9 KiB libffi aarch64 3.4.6-3.fc42 fedora 282.4 KiB libgcc aarch64 14.2.1-6.fc42 fedora 222.2 KiB libgomp aarch64 14.2.1-6.fc42 fedora 503.2 KiB libidn2 aarch64 2.3.7-2.fc41 fedora 457.2 KiB libmount aarch64 2.40.2-8.fc42 fedora 483.9 KiB libnghttp2 aarch64 1.64.0-1.fc42 fedora 262.2 KiB libnsl2 aarch64 2.0.1-2.fc41 fedora 222.0 KiB libpkgconf aarch64 2.3.0-1.fc42 fedora 198.1 KiB libpsl aarch64 0.21.5-4.fc41 fedora 196.6 KiB libpwquality aarch64 1.4.5-11.fc41 fedora 1.1 MiB libselinux aarch64 3.8-0.rc1.2.fc42 fedora 195.6 KiB libsemanage aarch64 3.8-0.rc1.1.fc42 fedora 353.3 KiB libsepol aarch64 3.8-0.rc1.1.fc42 fedora 809.9 KiB libsmartcols aarch64 2.40.2-8.fc42 fedora 288.5 KiB libssh aarch64 0.11.1-1.fc42 fedora 649.6 KiB libssh-config noarch 0.11.1-1.fc42 fedora 277.0 B libstdc++ aarch64 14.2.1-6.fc42 fedora 2.8 MiB libtasn1 aarch64 4.19.0-9.fc41 fedora 283.8 KiB libtirpc aarch64 1.3.6-1.fc42 fedora 212.9 KiB libtool-ltdl aarch64 2.5.4-1.fc42 fedora 92.1 KiB libunistring aarch64 1.1-8.fc41 fedora 1.8 MiB libuuid aarch64 2.40.2-8.fc42 fedora 197.5 KiB libverto aarch64 0.3.2-9.fc41 fedora 197.5 KiB libxcrypt aarch64 4.4.36-11.fc42 fedora 271.5 KiB libxml2 aarch64 2.12.8-2.fc41 fedora 2.1 MiB libzstd aarch64 1.5.6-2.fc41 fedora 796.0 KiB lua-libs aarch64 5.4.7-1.fc42 fedora 393.1 KiB lua-srpm-macros noarch 1-14.fc41 fedora 1.3 KiB lz4-libs aarch64 1.10.0-1.fc41 fedora 261.6 KiB mpfr aarch64 4.2.1-5.fc41 fedora 818.9 KiB ncurses-base noarch 6.5-2.20240629.fc41 fedora 326.3 KiB ncurses-libs aarch64 6.5-2.20240629.fc41 fedora 2.2 MiB ocaml-srpm-macros noarch 10-3.fc41 fedora 1.9 KiB openblas-srpm-macros noarch 2-18.fc41 fedora 112.0 B openldap aarch64 2.6.8-6.fc42 fedora 747.0 KiB openssl-libs aarch64 1:3.2.2-8.fc42 fedora 7.2 MiB p11-kit aarch64 0.25.5-4.fc42 fedora 2.6 MiB p11-kit-trust aarch64 0.25.5-4.fc42 fedora 655.7 KiB package-notes-srpm-macros noarch 0.5-12.fc41 fedora 1.6 KiB pam aarch64 1.7.0-3.fc42 fedora 4.3 MiB pam-libs aarch64 1.7.0-3.fc42 fedora 223.4 KiB pcre2 aarch64 10.44-1.fc41.1 fedora 905.5 KiB pcre2-syntax noarch 10.44-1.fc41.1 fedora 251.6 KiB perl-srpm-macros noarch 1-56.fc41 fedora 861.0 B pkgconf aarch64 2.3.0-1.fc42 fedora 240.6 KiB pkgconf-m4 noarch 2.3.0-1.fc42 fedora 14.4 KiB pkgconf-pkg-config aarch64 2.3.0-1.fc42 fedora 990.0 B popt aarch64 1.19-7.fc41 fedora 272.9 KiB publicsuffix-list-dafsa noarch 20240107-4.fc41 fedora 67.5 KiB pyproject-srpm-macros noarch 1.16.3-1.fc42 fedora 1.9 KiB python-srpm-macros noarch 3.13-3.fc41 fedora 51.0 KiB qt5-srpm-macros noarch 5.15.15-1.fc42 fedora 500.0 B qt6-srpm-macros noarch 6.8.1-3.fc42 fedora 456.0 B readline aarch64 8.2-11.fc42 fedora 753.3 KiB rpm aarch64 4.20.0-1.fc42 fedora 3.9 MiB rpm-build-libs aarch64 4.20.0-1.fc42 fedora 262.7 KiB rpm-libs aarch64 4.20.0-1.fc42 fedora 797.9 KiB rpm-sequoia aarch64 1.7.0-3.fc42 fedora 2.2 MiB rust-srpm-macros noarch 26.3-3.fc42 fedora 4.8 KiB setup noarch 2.15.0-5.fc41 fedora 720.7 KiB sqlite-libs aarch64 3.47.1-1.fc42 fedora 1.4 MiB systemd-libs aarch64 257~rc3-1.fc42 fedora 2.5 MiB util-linux-core aarch64 2.40.2-8.fc42 fedora 6.2 MiB xxhash-libs aarch64 0.8.2-4.fc42 fedora 212.3 KiB xz-libs aarch64 1:5.6.3-2.fc42 fedora 266.4 KiB zig-srpm-macros noarch 1-3.fc41 fedora 1.1 KiB zip aarch64 3.0-41.fc41 fedora 1.1 MiB zlib-ng-compat aarch64 2.2.2-1.fc42 fedora 133.8 KiB zstd aarch64 1.5.6-2.fc41 fedora 1.7 MiB Installing groups: Buildsystem building group Transaction Summary: Installing: 154 packages Total size of inbound packages is 52 MiB. Need to download 52 MiB. After this operation, 238 MiB extra will be used (install 238 MiB, remove 0 B). [ 1/154] bzip2-0:1.0.8-19.fc41.aarch64 100% | 315.7 KiB/s | 52.4 KiB | 00m00s [ 2/154] cpio-0:2.15-2.fc41.aarch64 100% | 2.8 MiB/s | 291.3 KiB | 00m00s [ 3/154] bash-0:5.2.37-1.fc42.aarch64 100% | 5.4 MiB/s | 1.8 MiB | 00m00s [ 4/154] diffutils-0:3.10-8.fc41.aarch 100% | 5.2 MiB/s | 402.9 KiB | 00m00s [ 5/154] coreutils-0:9.5-11.fc42.aarch 100% | 2.9 MiB/s | 1.1 MiB | 00m00s [ 6/154] fedora-release-common-0:42-0. 100% | 745.7 KiB/s | 23.9 KiB | 00m00s [ 7/154] glibc-minimal-langpack-0:2.40 100% | 2.9 MiB/s | 120.6 KiB | 00m00s [ 8/154] gawk-0:5.3.0-4.fc41.aarch64 100% | 24.0 MiB/s | 1.1 MiB | 00m00s [ 9/154] findutils-1:4.10.0-4.fc41.aar 100% | 5.6 MiB/s | 554.1 KiB | 00m00s [ 10/154] gzip-0:1.13-2.fc41.aarch64 100% | 4.9 MiB/s | 169.1 KiB | 00m00s [ 11/154] grep-0:3.11-9.fc41.aarch64 100% | 4.3 MiB/s | 297.9 KiB | 00m00s [ 12/154] info-0:7.1.1-2.fc42.aarch64 100% | 5.2 MiB/s | 181.3 KiB | 00m00s [ 13/154] patch-0:2.7.6-25.fc41.aarch64 100% | 3.8 MiB/s | 128.8 KiB | 00m00s [ 14/154] redhat-rpm-config-0:296-1.fc4 100% | 2.4 MiB/s | 82.4 KiB | 00m00s [ 15/154] rpm-build-0:4.20.0-1.fc42.aar 100% | 2.3 MiB/s | 84.1 KiB | 00m00s [ 16/154] sed-0:4.9-3.fc41.aarch64 100% | 7.7 MiB/s | 315.4 KiB | 00m00s [ 17/154] unzip-0:6.0-65.fc42.aarch64 100% | 5.3 MiB/s | 185.5 KiB | 00m00s [ 18/154] tar-2:1.35-4.fc41.aarch64 100% | 6.2 MiB/s | 854.7 KiB | 00m00s [ 19/154] util-linux-0:2.40.2-8.fc42.aa 100% | 11.1 MiB/s | 1.2 MiB | 00m00s [ 20/154] which-0:2.21-42.fc41.aarch64 100% | 1.3 MiB/s | 41.5 KiB | 00m00s [ 21/154] xz-1:5.6.3-2.fc42.aarch64 100% | 12.2 MiB/s | 476.1 KiB | 00m00s [ 22/154] shadow-utils-2:4.16.0-7.fc42. 100% | 5.8 MiB/s | 1.3 MiB | 00m00s [ 23/154] glibc-0:2.40.9000-21.fc42.aar 100% | 17.9 MiB/s | 1.8 MiB | 00m00s [ 24/154] ncurses-libs-0:6.5-2.20240629 100% | 4.5 MiB/s | 326.5 KiB | 00m00s [ 25/154] bzip2-libs-0:1.0.8-19.fc41.aa 100% | 1.3 MiB/s | 42.7 KiB | 00m00s [ 26/154] gmp-1:6.3.0-2.fc41.aarch64 100% | 7.3 MiB/s | 270.1 KiB | 00m00s [ 27/154] filesystem-0:3.18-29.fc42.aar 100% | 5.2 MiB/s | 1.1 MiB | 00m00s [ 28/154] libacl-0:2.3.2-2.fc41.aarch64 100% | 691.5 KiB/s | 24.9 KiB | 00m00s [ 29/154] libattr-0:2.5.2-4.fc41.aarch6 100% | 536.4 KiB/s | 18.2 KiB | 00m00s [ 30/154] libcap-0:2.71-1.fc42.aarch64 100% | 2.7 MiB/s | 86.8 KiB | 00m00s [ 31/154] libselinux-0:3.8-0.rc1.2.fc42 100% | 2.7 MiB/s | 90.4 KiB | 00m00s [ 32/154] openssl-libs-1:3.2.2-8.fc42.a 100% | 17.0 MiB/s | 2.2 MiB | 00m00s [ 33/154] systemd-libs-0:257~rc3-1.fc42 100% | 5.8 MiB/s | 789.5 KiB | 00m00s [ 34/154] fedora-repos-0:42-0.3.noarch 100% | 287.2 KiB/s | 9.2 KiB | 00m00s [ 35/154] readline-0:8.2-11.fc42.aarch6 100% | 5.9 MiB/s | 212.7 KiB | 00m00s [ 36/154] mpfr-0:4.2.1-5.fc41.aarch64 100% | 4.8 MiB/s | 324.8 KiB | 00m00s [ 37/154] coreutils-common-0:9.5-11.fc4 100% | 5.7 MiB/s | 2.1 MiB | 00m00s [ 38/154] glibc-common-0:2.40.9000-21.f 100% | 9.4 MiB/s | 383.6 KiB | 00m00s [ 39/154] ansible-srpm-macros-0:1-16.fc 100% | 649.2 KiB/s | 20.8 KiB | 00m00s [ 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-------------------------------------------------------------------------------- [154/154] Total 100% | 8.1 MiB/s | 51.6 MiB | 00m06s Running transaction Importing OpenPGP key 0x105EF944: UserID : "Fedora (42) " Fingerprint: B0F4950458F69E1150C6C5EDC8AC4916105EF944 From : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-42-primary The key was successfully imported. Importing OpenPGP key 0x105EF944: UserID : "Fedora (42) " Fingerprint: B0F4950458F69E1150C6C5EDC8AC4916105EF944 From : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-42-primary The key was successfully imported. Importing OpenPGP key 0xE99D6AD1: UserID : "Fedora (41) " Fingerprint: 466CF2D8B60BC3057AA9453ED0622462E99D6AD1 From : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-41-primary The key was successfully imported. Importing OpenPGP key 0x31645531: UserID : "Fedora (43) " Fingerprint: C6E7F081CF80E13146676E88829B606631645531 From : file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-43-primary The key was successfully imported. 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| 120.6 MiB/s | 246.9 KiB | 00m00s [141/156] Installing curl-0:8.10.1-2.fc 100% | 47.5 MiB/s | 583.8 KiB | 00m00s [142/156] Installing rpm-0:4.20.0-1.fc4 100% | 146.0 MiB/s | 3.4 MiB | 00m00s [143/156] Installing efi-srpm-macros-0: 100% | 40.2 MiB/s | 41.2 KiB | 00m00s [144/156] Installing lua-srpm-macros-0: 100% | 0.0 B/s | 1.9 KiB | 00m00s [145/156] Installing zig-srpm-macros-0: 100% | 0.0 B/s | 1.7 KiB | 00m00s [146/156] Installing fonts-srpm-macros- 100% | 55.7 MiB/s | 57.0 KiB | 00m00s [147/156] Installing forge-srpm-macros- 100% | 39.3 MiB/s | 40.3 KiB | 00m00s [148/156] Installing go-srpm-macros-0:3 100% | 60.5 MiB/s | 62.0 KiB | 00m00s [149/156] Installing python-srpm-macros 100% | 50.9 MiB/s | 52.2 KiB | 00m00s [150/156] Installing redhat-rpm-config- 100% | 62.9 MiB/s | 193.2 KiB | 00m00s [151/156] Installing rpm-build-0:4.20.0 100% | 279.4 MiB/s | 1.4 MiB | 00m00s [152/156] Installing pyproject-srpm-mac 100% | 1.2 MiB/s | 2.5 KiB | 00m00s [153/156] Installing util-linux-0:2.40. 100% | 346.0 MiB/s | 17.0 MiB | 00m00s [154/156] Installing authselect-0:1.5.0 100% | 102.2 MiB/s | 313.9 KiB | 00m00s [155/156] Installing which-0:2.21-42.fc 100% | 122.2 MiB/s | 250.4 KiB | 00m00s [156/156] Installing info-0:7.1.1-2.fc4 100% | 280.3 KiB/s | 614.0 KiB | 00m02s Complete! Finish: installing minimal buildroot with dnf5 Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: add-determinism-0.4.3-1.fc42.aarch64 alternatives-1.30-1.fc41.aarch64 ansible-srpm-macros-1-16.fc41.noarch audit-libs-4.0.2-1.fc41.aarch64 authselect-1.5.0-8.fc42.aarch64 authselect-libs-1.5.0-8.fc42.aarch64 basesystem-11-21.fc41.noarch bash-5.2.37-1.fc42.aarch64 binutils-2.43.50-9.fc42.aarch64 build-reproducibility-srpm-macros-0.4.3-1.fc42.noarch bzip2-1.0.8-19.fc41.aarch64 bzip2-libs-1.0.8-19.fc41.aarch64 ca-certificates-2024.2.69_v8.0.401-3.fc42.noarch coreutils-9.5-11.fc42.aarch64 coreutils-common-9.5-11.fc42.aarch64 cpio-2.15-2.fc41.aarch64 cracklib-2.9.11-6.fc41.aarch64 crypto-policies-20241128-1.gitbb7b0b0.fc42.noarch curl-8.10.1-2.fc42.aarch64 cyrus-sasl-lib-2.1.28-27.fc41.aarch64 debugedit-5.1-2.fc42.aarch64 diffutils-3.10-8.fc41.aarch64 dwz-0.15-8.fc42.aarch64 ed-1.20.2-2.fc41.aarch64 efi-srpm-macros-5-13.fc42.noarch elfutils-0.192-7.fc42.aarch64 elfutils-debuginfod-client-0.192-7.fc42.aarch64 elfutils-default-yama-scope-0.192-7.fc42.noarch elfutils-libelf-0.192-7.fc42.aarch64 elfutils-libs-0.192-7.fc42.aarch64 fedora-gpg-keys-42-0.3.noarch fedora-release-42-0.11.noarch fedora-release-common-42-0.11.noarch fedora-release-identity-basic-42-0.11.noarch fedora-repos-42-0.3.noarch fedora-repos-rawhide-42-0.3.noarch file-5.45-8.fc42.aarch64 file-libs-5.45-8.fc42.aarch64 filesystem-3.18-29.fc42.aarch64 findutils-4.10.0-4.fc41.aarch64 fonts-srpm-macros-2.0.5-17.fc41.noarch forge-srpm-macros-0.4.0-1.fc42.noarch fpc-srpm-macros-1.3-13.fc41.noarch gawk-5.3.0-4.fc41.aarch64 gdb-minimal-15.2-3.fc42.aarch64 gdbm-1.23-7.fc41.aarch64 gdbm-libs-1.23-7.fc41.aarch64 ghc-srpm-macros-1.9.2-1.fc42.noarch glibc-2.40.9000-21.fc42.aarch64 glibc-common-2.40.9000-21.fc42.aarch64 glibc-gconv-extra-2.40.9000-21.fc42.aarch64 glibc-minimal-langpack-2.40.9000-21.fc42.aarch64 gmp-6.3.0-2.fc41.aarch64 gnat-srpm-macros-6-6.fc41.noarch go-srpm-macros-3.6.0-5.fc42.noarch gpg-pubkey-105ef944-65ca83d1 gpg-pubkey-31645531-66b6dccf gpg-pubkey-e99d6ad1-64d2612c grep-3.11-9.fc41.aarch64 gzip-1.13-2.fc41.aarch64 info-7.1.1-2.fc42.aarch64 jansson-2.14-1.fc42.aarch64 json-c-0.18-1.fc42.aarch64 kernel-srpm-macros-1.0-24.fc41.noarch keyutils-libs-1.6.3-4.fc41.aarch64 krb5-libs-1.21.3-3.fc42.aarch64 libacl-2.3.2-2.fc41.aarch64 libarchive-3.7.7-1.fc42.aarch64 libattr-2.5.2-4.fc41.aarch64 libblkid-2.40.2-8.fc42.aarch64 libbrotli-1.1.0-5.fc41.aarch64 libcap-2.71-1.fc42.aarch64 libcap-ng-0.8.5-3.fc41.aarch64 libcom_err-1.47.1-6.fc42.aarch64 libcurl-8.10.1-2.fc42.aarch64 libeconf-0.7.4-3.fc42.aarch64 libevent-2.1.12-14.fc41.aarch64 libfdisk-2.40.2-8.fc42.aarch64 libffi-3.4.6-3.fc42.aarch64 libgcc-14.2.1-6.fc42.aarch64 libgomp-14.2.1-6.fc42.aarch64 libidn2-2.3.7-2.fc41.aarch64 libmount-2.40.2-8.fc42.aarch64 libnghttp2-1.64.0-1.fc42.aarch64 libnsl2-2.0.1-2.fc41.aarch64 libpkgconf-2.3.0-1.fc42.aarch64 libpsl-0.21.5-4.fc41.aarch64 libpwquality-1.4.5-11.fc41.aarch64 libselinux-3.8-0.rc1.2.fc42.aarch64 libsemanage-3.8-0.rc1.1.fc42.aarch64 libsepol-3.8-0.rc1.1.fc42.aarch64 libsmartcols-2.40.2-8.fc42.aarch64 libssh-0.11.1-1.fc42.aarch64 libssh-config-0.11.1-1.fc42.noarch libstdc++-14.2.1-6.fc42.aarch64 libtasn1-4.19.0-9.fc41.aarch64 libtirpc-1.3.6-1.fc42.aarch64 libtool-ltdl-2.5.4-1.fc42.aarch64 libunistring-1.1-8.fc41.aarch64 libuuid-2.40.2-8.fc42.aarch64 libverto-0.3.2-9.fc41.aarch64 libxcrypt-4.4.36-11.fc42.aarch64 libxml2-2.12.8-2.fc41.aarch64 libzstd-1.5.6-2.fc41.aarch64 lua-libs-5.4.7-1.fc42.aarch64 lua-srpm-macros-1-14.fc41.noarch lz4-libs-1.10.0-1.fc41.aarch64 mpfr-4.2.1-5.fc41.aarch64 ncurses-base-6.5-2.20240629.fc41.noarch ncurses-libs-6.5-2.20240629.fc41.aarch64 ocaml-srpm-macros-10-3.fc41.noarch openblas-srpm-macros-2-18.fc41.noarch openldap-2.6.8-6.fc42.aarch64 openssl-libs-3.2.2-8.fc42.aarch64 p11-kit-0.25.5-4.fc42.aarch64 p11-kit-trust-0.25.5-4.fc42.aarch64 package-notes-srpm-macros-0.5-12.fc41.noarch pam-1.7.0-3.fc42.aarch64 pam-libs-1.7.0-3.fc42.aarch64 patch-2.7.6-25.fc41.aarch64 pcre2-10.44-1.fc41.1.aarch64 pcre2-syntax-10.44-1.fc41.1.noarch perl-srpm-macros-1-56.fc41.noarch pkgconf-2.3.0-1.fc42.aarch64 pkgconf-m4-2.3.0-1.fc42.noarch pkgconf-pkg-config-2.3.0-1.fc42.aarch64 popt-1.19-7.fc41.aarch64 publicsuffix-list-dafsa-20240107-4.fc41.noarch pyproject-srpm-macros-1.16.3-1.fc42.noarch python-srpm-macros-3.13-3.fc41.noarch qt5-srpm-macros-5.15.15-1.fc42.noarch qt6-srpm-macros-6.8.1-3.fc42.noarch readline-8.2-11.fc42.aarch64 redhat-rpm-config-296-1.fc42.noarch rpm-4.20.0-1.fc42.aarch64 rpm-build-4.20.0-1.fc42.aarch64 rpm-build-libs-4.20.0-1.fc42.aarch64 rpm-libs-4.20.0-1.fc42.aarch64 rpm-sequoia-1.7.0-3.fc42.aarch64 rust-srpm-macros-26.3-3.fc42.noarch sed-4.9-3.fc41.aarch64 setup-2.15.0-5.fc41.noarch shadow-utils-4.16.0-7.fc42.aarch64 sqlite-libs-3.47.1-1.fc42.aarch64 systemd-libs-257~rc3-1.fc42.aarch64 tar-1.35-4.fc41.aarch64 unzip-6.0-65.fc42.aarch64 util-linux-2.40.2-8.fc42.aarch64 util-linux-core-2.40.2-8.fc42.aarch64 which-2.21-42.fc41.aarch64 xxhash-libs-0.8.2-4.fc42.aarch64 xz-5.6.3-2.fc42.aarch64 xz-libs-5.6.3-2.fc42.aarch64 zig-srpm-macros-1-3.fc41.noarch zip-3.0-41.fc41.aarch64 zlib-ng-compat-2.2.2-1.fc42.aarch64 zstd-1.5.6-2.fc41.aarch64 Start: buildsrpm Start: rpmbuild -bs Building target platforms: aarch64 Building for target aarch64 setting SOURCE_DATE_EPOCH=1733702400 Wrote: /builddir/build/SRPMS/bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.src.rpm Finish: rpmbuild -bs INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-rawhide-aarch64-1733757126.396670/root/var/log/dnf5.log INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz /bin/tar: Removing leading `/' from member names Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-kmtgqc96/bout++/bout++.spec) Config(child) 0 minutes 26 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot INFO: Start(/var/lib/copr-rpmbuild/results/bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.src.rpm) Config(fedora-rawhide-aarch64) Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1733757126.396670/root. INFO: reusing tmpfs at /var/lib/mock/fedora-rawhide-aarch64-bootstrap-1733757126.396670/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-aarch64-1733757126.396670/root. INFO: calling preinit hooks INFO: enabled root cache Start: unpacking root cache Finish: unpacking root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin INFO: Buildroot is handled by package management downloaded with a bootstrap image: rpm-4.20.0-1.fc42.aarch64 rpm-sequoia-1.7.0-3.fc42.aarch64 dnf5-5.2.8.1-1.fc42.aarch64 dnf5-plugins-5.2.8.1-1.fc42.aarch64 Finish: chroot init Start: build phase for bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.src.rpm Start: build setup for bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.src.rpm Building target platforms: aarch64 Building for target aarch64 setting SOURCE_DATE_EPOCH=1733702400 Wrote: /builddir/build/SRPMS/bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.src.rpm Updating and loading repositories: Copr repository 100% | 89.3 KiB/s | 1.5 KiB | 00m00s fedora 100% | 359.9 KiB/s | 8.6 KiB | 00m00s Additional repo copr_sagitter_ForTesti 100% | 130.4 KiB/s | 1.8 KiB | 00m00s Repositories loaded. Package Arch Version Repository Size Installing: chrpath aarch64 0.16-24.fc41 fedora 230.5 KiB cmake aarch64 3.31.2-1.fc42 fedora 28.8 MiB doxygen aarch64 2:1.12.0-3.fc42 fedora 19.7 MiB environment-modules aarch64 5.5.0-1.fc42 fedora 1.8 MiB fftw-devel aarch64 3.3.10-13.fc41 fedora 283.0 KiB flexiblas-devel aarch64 3.4.4-3.fc41 fedora 5.1 MiB fmt-devel aarch64 11.0.2-2.fc42 fedora 575.3 KiB gcc-c++ aarch64 14.2.1-6.fc42 fedora 36.8 MiB gdb aarch64 15.2-3.fc42 fedora 445.3 KiB gettext-devel aarch64 0.22.5-6.fc41 fedora 1.1 MiB hdf5-devel aarch64 1.14.5-1.fc42 fedora 3.2 MiB hdf5-mpich-devel aarch64 1.14.5-1.fc42 fedora 3.1 MiB hdf5-openmpi-devel aarch64 1.14.5-1.fc42 fedora 3.1 MiB m4 aarch64 1.4.19-10.fc41 fedora 668.7 KiB make aarch64 1:4.4.1-9.fc42 fedora 1.8 MiB mpark-variant-devel aarch64 1.4.0-13.fc41 fedora 117.1 KiB mpich-devel aarch64 4.2.2-1.fc42 fedora 2.0 MiB netcdf-cxx4-devel aarch64 4.3.1-13.fc41 fedora 459.0 KiB netcdf-devel aarch64 4.9.2-7.fc42 fedora 368.6 KiB openmpi-devel aarch64 5.0.6-1.fc42 fedora 3.3 MiB petsc-mpich-devel aarch64 3.22.2-1.fc42 copr_sagitter_ForTesting 10.6 MiB petsc-openmpi-devel aarch64 3.22.2-1.fc42 copr_sagitter_ForTesting 11.2 MiB python3 aarch64 3.13.0-1.fc42 fedora 211.8 KiB python3-boutdata noarch 0.2.1-7.fc41 fedora 545.5 KiB python3-boututils noarch 0.2.1-6.fc41 fedora 435.6 KiB python3-cython aarch64 3.0.11-1.fc41 fedora 19.1 MiB python3-devel aarch64 3.13.0-1.fc42 fedora 1.8 MiB python3-jinja2 noarch 3.1.4-5.fc41 fedora 2.9 MiB python3-netcdf4 aarch64 1.7.2-1.fc42 fedora 2.2 MiB python3-numpy aarch64 1:1.26.4-8.fc41 fedora 41.2 MiB python3-scipy aarch64 1.14.1-1.fc42 fedora 66.6 MiB python3-sphinx noarch 1:7.3.7-2.fc41 fedora 10.8 MiB python3-tables aarch64 3.10.1-3.fc42 fedora 10.2 MiB python3-zoidberg noarch 0.1.1-8.fc42 fedora 508.6 KiB sundials-devel aarch64 7.1.1-1.fc42 copr_sagitter_ForTesting 6.9 MiB sundials-mpich-devel aarch64 7.1.1-1.fc42 copr_sagitter_ForTesting 7.2 MiB sundials-openmpi-devel aarch64 7.1.1-1.fc42 copr_sagitter_ForTesting 7.3 MiB zlib-ng-compat-devel aarch64 2.2.2-1.fc42 fedora 106.8 KiB Installing dependencies: MUMPS-common noarch 5.7.3-1.fc42 copr_sagitter_ForTesting 988.4 KiB MUMPS-mpich aarch64 5.7.3-1.fc42 copr_sagitter_ForTesting 8.1 MiB MUMPS-openmpi aarch64 5.7.3-1.fc42 copr_sagitter_ForTesting 8.1 MiB SuperLUMT-common noarch 4.0.1-3.fc41 fedora 679.2 KiB SuperLUMT64-double aarch64 4.0.1-3.fc41 fedora 261.3 KiB abattis-cantarell-vf-fonts noarch 0.301-13.fc41 fedora 192.7 KiB adobe-mappings-cmap noarch 20231115-1.fc42 fedora 15.2 MiB adobe-mappings-cmap-deprecated noarch 20231115-1.fc42 fedora 582.1 KiB adobe-mappings-pdf noarch 20190401-8.fc41 fedora 4.4 MiB annobin-docs noarch 12.77-1.fc42 fedora 98.4 KiB annobin-plugin-gcc aarch64 12.77-1.fc42 fedora 1.0 MiB avahi-libs aarch64 0.8-30.fc42 fedora 614.5 KiB blosc aarch64 1.21.6-1.fc42 fedora 258.0 KiB blosc2 aarch64 2.15.1-1.fc42 fedora 640.1 KiB boost-regex aarch64 1.83.0-9.fc42 fedora 259.7 KiB brotli aarch64 1.1.0-5.fc41 fedora 195.8 KiB brotli-devel aarch64 1.1.0-5.fc41 fedora 65.6 KiB cairo aarch64 1.18.2-2.fc42 fedora 1.8 MiB cairo-gobject aarch64 1.18.2-2.fc42 fedora 66.1 KiB cmake-data noarch 3.31.2-1.fc42 fedora 8.5 MiB cmake-filesystem aarch64 3.31.2-1.fc42 fedora 0.0 B cmake-rpm-macros noarch 3.31.2-1.fc42 fedora 7.5 KiB cpp aarch64 14.2.1-6.fc42 fedora 33.7 MiB ctags aarch64 6.1.0-1.fc42 fedora 2.3 MiB cups-filesystem noarch 1:2.4.11-8.fc42 fedora 0.0 B cups-libs aarch64 1:2.4.11-8.fc42 fedora 721.8 KiB dbus aarch64 1:1.14.10-4.fc41 fedora 0.0 B dbus-broker aarch64 36-4.fc41 fedora 614.3 KiB dbus-common noarch 1:1.14.10-4.fc41 fedora 11.2 KiB dbus-libs aarch64 1:1.14.10-4.fc41 fedora 489.1 KiB default-fonts-core-sans noarch 4.2-2.fc42 fedora 11.9 KiB dejavu-sans-fonts noarch 2.37-24.fc41 fedora 5.5 MiB emacs-filesystem noarch 1:30.0-3.fc41 fedora 0.0 B expat aarch64 2.6.4-1.fc42 fedora 349.3 KiB fftw aarch64 3.3.10-13.fc41 fedora 605.8 KiB fftw-libs aarch64 3.3.10-13.fc41 fedora 0.0 B fftw-libs-double aarch64 3.3.10-13.fc41 fedora 2.3 MiB fftw-libs-long aarch64 3.3.10-13.fc41 fedora 2.7 MiB fftw-libs-single aarch64 3.3.10-13.fc41 fedora 2.4 MiB flexiblas aarch64 3.4.4-3.fc41 fedora 48.5 KiB flexiblas-netlib aarch64 3.4.4-3.fc41 fedora 9.8 MiB flexiblas-netlib64 aarch64 3.4.4-3.fc41 fedora 9.7 MiB flexiblas-openblas-openmp aarch64 3.4.4-3.fc41 fedora 195.4 KiB flexiblas-openblas-openmp64 aarch64 3.4.4-3.fc41 fedora 195.5 KiB fmt aarch64 11.0.2-2.fc42 fedora 375.7 KiB fontconfig aarch64 2.15.0-8.fc41 fedora 2.4 MiB fonts-filesystem noarch 1:2.0.5-17.fc41 fedora 0.0 B freetype aarch64 2.13.3-1.fc42 fedora 943.0 KiB fribidi aarch64 1.0.16-1.fc42 fedora 502.6 KiB gcc aarch64 14.2.1-6.fc42 fedora 96.6 MiB gcc-gfortran aarch64 14.2.1-6.fc42 fedora 35.7 MiB gcc-plugin-annobin aarch64 14.2.1-6.fc42 fedora 73.5 KiB gd aarch64 2.3.3-17.fc41 fedora 515.7 KiB gdb-headless aarch64 15.2-3.fc42 fedora 15.3 MiB gdk-pixbuf2 aarch64 2.42.12-6.fc41 fedora 2.9 MiB gettext aarch64 0.22.5-6.fc41 fedora 8.2 MiB gettext-common-devel noarch 0.22.5-6.fc41 fedora 586.5 KiB gettext-envsubst aarch64 0.22.5-6.fc41 fedora 234.9 KiB gettext-libs aarch64 0.22.5-6.fc41 fedora 2.0 MiB gettext-runtime aarch64 0.22.5-6.fc41 fedora 793.2 KiB glib2 aarch64 2.83.0-2.fc42 fedora 15.4 MiB glibc-devel aarch64 2.40.9000-21.fc42 fedora 2.2 MiB gnupg2 aarch64 2.4.5-4.fc42 fedora 10.1 MiB gnutls aarch64 3.8.8-1.fc42 fedora 3.4 MiB google-droid-sans-fonts noarch 20200215-21.fc41 fedora 6.3 MiB google-noto-fonts-common noarch 20240901-1.fc42 fedora 17.5 KiB google-noto-sans-vf-fonts noarch 20240901-1.fc42 fedora 1.2 MiB gpgme aarch64 1.24.0-1.fc42 fedora 690.0 KiB gpgmepp aarch64 1.24.0-1.fc42 fedora 458.0 KiB graphite2 aarch64 1.3.14-16.fc41 fedora 495.9 KiB graphviz aarch64 12.2.0-1.fc42 fedora 22.1 MiB graphviz-libs aarch64 12.2.0-1.fc42 fedora 1.3 MiB groff-base aarch64 1.23.0-7.fc41 fedora 5.2 MiB gts aarch64 0.7.6-49.20121130.fc41 fedora 2.4 MiB harfbuzz aarch64 10.1.0-2.fc42 fedora 2.5 MiB hdf-libs aarch64 4.3.0-1.fc42 fedora 851.5 KiB hdf5 aarch64 1.14.5-1.fc42 fedora 8.1 MiB hdf5-mpich aarch64 1.14.5-1.fc42 fedora 7.9 MiB hdf5-openmpi aarch64 1.14.5-1.fc42 fedora 7.9 MiB hwloc-libs aarch64 2.11.2-1.fc42 fedora 2.9 MiB hypre-mpich aarch64 2.32.0-1.fc42 copr_sagitter_ForTesting 4.2 MiB hypre-openmpi aarch64 2.32.0-1.fc42 copr_sagitter_ForTesting 4.2 MiB jbig2dec-libs aarch64 0.20-5.fc41 fedora 301.1 KiB jbigkit-libs aarch64 2.1-30.fc41 fedora 437.7 KiB jsoncpp aarch64 1.9.5-8.fc41 fedora 335.7 KiB kernel-headers aarch64 6.13.0-0.rc1.e70140ba0d2b.14.fc42 fedora 6.4 MiB lasi aarch64 1.1.3-14.fc41 fedora 258.5 KiB lcms2 aarch64 2.16-4.fc41 fedora 484.9 KiB less aarch64 668-1.fc42 fedora 870.3 KiB libICE aarch64 1.1.1-4.fc41 fedora 273.1 KiB libSM aarch64 1.2.4-4.fc41 fedora 253.4 KiB libX11 aarch64 1.8.10-2.fc42 fedora 1.3 MiB libX11-common noarch 1.8.10-2.fc42 fedora 1.1 MiB libXau aarch64 1.0.11-7.fc41 fedora 242.9 KiB libXext aarch64 1.3.6-2.fc41 fedora 210.0 KiB libXft aarch64 2.3.8-7.fc41 fedora 256.5 KiB libXpm aarch64 3.5.17-4.fc41 fedora 264.5 KiB libXrender aarch64 0.9.11-7.fc41 fedora 198.2 KiB libXt aarch64 1.3.1-1.fc42 fedora 480.5 KiB libaec aarch64 1.1.3-1.fc42 fedora 410.2 KiB libaec-devel aarch64 1.1.3-1.fc42 fedora 12.5 KiB libaom aarch64 3.9.0-3.fc41 fedora 3.7 MiB libasan aarch64 14.2.1-6.fc42 fedora 1.5 MiB libassuan aarch64 2.5.7-2.fc41 fedora 279.8 KiB libatomic aarch64 14.2.1-6.fc42 fedora 69.0 KiB libavif aarch64 1.0.4-7.fc41 fedora 279.9 KiB libb2 aarch64 0.98.1-12.fc41 fedora 202.2 KiB libbabeltrace aarch64 1.5.11-9.fc41 fedora 1.4 MiB libcbor aarch64 0.11.0-2.fc41 fedora 202.0 KiB libcurl-devel aarch64 8.10.1-2.fc42 fedora 1.3 MiB libdatrie aarch64 0.2.13-10.fc41 fedora 222.0 KiB libdav1d aarch64 1.5.0-1.fc42 fedora 921.0 KiB libedit aarch64 3.1-53.20240808cvs.fc41 fedora 344.2 KiB libfabric aarch64 1.22.0-1.fc41 fedora 2.1 MiB libfido2 aarch64 1.15.0-2.fc41 fedora 342.4 KiB libgcrypt aarch64 1.11.0-4.fc42 fedora 1.1 MiB libgfortran aarch64 14.2.1-6.fc42 fedora 1.5 MiB libgpg-error aarch64 1.51-1.fc42 fedora 955.0 KiB libgs aarch64 10.04.0-1.fc42 fedora 23.2 MiB libibverbs aarch64 54.0-3.fc42 fedora 1.7 MiB libicu aarch64 76.1-1.fc42 fedora 36.5 MiB libidn2-devel aarch64 2.3.7-2.fc41 fedora 252.1 KiB libijs aarch64 0.35-23.fc41 fedora 229.7 KiB libimagequant aarch64 4.0.3-5.fc41 fedora 667.1 KiB libjpeg-turbo aarch64 3.0.4-1.fc42 fedora 796.8 KiB libksba aarch64 1.6.7-2.fc41 fedora 526.5 KiB liblerc aarch64 4.0.0-7.fc41 fedora 610.5 KiB libmpc aarch64 1.3.1-6.fc41 fedora 280.8 KiB libnghttp2-devel aarch64 1.64.0-1.fc42 fedora 295.4 KiB libnl3 aarch64 3.11.0-1.fc42 fedora 1.3 MiB libpaper aarch64 1:2.1.1-7.fc41 fedora 225.0 KiB libpipeline aarch64 1.5.8-1.fc42 fedora 273.1 KiB libpng aarch64 2:1.6.44-1.fc42 fedora 333.9 KiB libpsl-devel aarch64 0.21.5-4.fc41 fedora 110.3 KiB libqhull_r aarch64 1:8.0.2-5.fc41 fedora 583.5 KiB libraqm aarch64 0.10.1-1.fc42 fedora 196.8 KiB librdmacm aarch64 54.0-3.fc42 fedora 210.8 KiB librsvg2 aarch64 2.59.2-1.fc42 fedora 4.3 MiB libseccomp aarch64 2.5.5-2.fc41 fedora 241.4 KiB libssh-devel aarch64 0.11.1-1.fc42 fedora 177.8 KiB libstdc++-devel aarch64 14.2.1-6.fc42 fedora 15.1 MiB libtextstyle aarch64 0.22.5-6.fc41 fedora 263.3 KiB libthai aarch64 0.1.29-9.fc41 fedora 935.5 KiB libtiff aarch64 4.7.0-2.fc42 fedora 658.8 KiB libubsan aarch64 14.2.1-6.fc42 fedora 475.2 KiB libuv aarch64 1:1.49.2-1.fc42 fedora 664.8 KiB libwebp aarch64 1.4.0-4.fc41 fedora 1.2 MiB libxcb aarch64 1.17.0-3.fc42 fedora 5.0 MiB libxcrypt-devel aarch64 4.4.36-11.fc42 fedora 30.5 KiB libyaml aarch64 0.2.5-15.fc41 fedora 262.6 KiB logrotate aarch64 3.22.0-2.fc41 fedora 253.0 KiB lzo aarch64 2.10-13.fc41 fedora 290.9 KiB man-db aarch64 2.13.0-1.fc42 fedora 4.6 MiB metis aarch64 5.1.0.3-6.fc41 fedora 2.0 MiB mpdecimal aarch64 2.5.1-16.fc41 fedora 328.9 KiB mpich aarch64 4.2.2-1.fc42 fedora 7.9 MiB munge aarch64 0.5.16-3.fc41 fedora 1.1 MiB munge-libs aarch64 0.5.16-3.fc41 fedora 196.2 KiB ncurses aarch64 6.5-2.20240629.fc41 fedora 1.7 MiB netcdf aarch64 4.9.2-7.fc42 fedora 35.8 MiB netcdf-cxx4 aarch64 4.3.1-13.fc41 fedora 392.1 KiB netpbm aarch64 11.02.00-7.fc41 fedora 629.0 KiB nettle aarch64 3.10-3.fc41 fedora 956.7 KiB npth aarch64 1.8-1.fc42 fedora 93.5 KiB nspr aarch64 4.36.0-1.fc42 fedora 430.9 KiB nss aarch64 3.106.0-1.fc42 fedora 2.0 MiB nss-softokn aarch64 3.106.0-1.fc42 fedora 2.2 MiB nss-softokn-freebl aarch64 3.106.0-1.fc42 fedora 756.9 KiB nss-sysinit aarch64 3.106.0-1.fc42 fedora 70.3 KiB nss-util aarch64 3.106.0-1.fc42 fedora 218.7 KiB openblas aarch64 0.3.28-2.fc42 fedora 106.6 KiB openblas-openmp aarch64 0.3.28-2.fc42 fedora 20.6 MiB openblas-openmp64 aarch64 0.3.28-2.fc42 fedora 20.4 MiB openblas-serial aarch64 0.3.28-2.fc42 fedora 19.6 MiB openjpeg aarch64 2.5.2-4.fc42 fedora 537.7 KiB openmpi aarch64 5.0.6-1.fc42 fedora 7.2 MiB openssh aarch64 9.9p1-5.fc42 fedora 1.4 MiB openssh-clients aarch64 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1.02-512.fc42 fedora 2.2 KiB perl-Socket aarch64 4:2.038-511.fc41 fedora 272.1 KiB perl-Storable aarch64 1:3.32-511.fc41 fedora 372.5 KiB perl-Symbol noarch 1.09-512.fc42 fedora 6.8 KiB perl-Term-ANSIColor noarch 5.01-512.fc41 fedora 97.5 KiB perl-Term-Cap noarch 1.18-511.fc41 fedora 29.3 KiB perl-Text-ParseWords noarch 3.31-511.fc41 fedora 13.6 KiB perl-Text-Tabs+Wrap noarch 2024.001-511.fc41 fedora 22.6 KiB perl-Time-Local noarch 2:1.350-511.fc41 fedora 69.0 KiB perl-URI noarch 5.31-1.fc42 fedora 257.0 KiB perl-base noarch 2.27-512.fc42 fedora 12.5 KiB perl-constant noarch 1.33-512.fc41 fedora 26.2 KiB perl-if noarch 0.61.000-512.fc42 fedora 5.8 KiB perl-interpreter aarch64 4:5.40.0-512.fc42 fedora 302.3 KiB perl-libnet noarch 3.15-512.fc41 fedora 289.4 KiB perl-libs aarch64 4:5.40.0-512.fc42 fedora 10.9 MiB perl-locale noarch 1.12-512.fc42 fedora 6.5 KiB perl-mro aarch64 1.29-512.fc42 fedora 209.7 KiB perl-overload noarch 1.37-512.fc42 fedora 71.5 KiB perl-overloading noarch 0.02-512.fc42 fedora 4.8 KiB perl-parent noarch 1:0.243-1.fc42 fedora 10.2 KiB perl-podlators noarch 1:6.0.2-2.fc41 fedora 317.5 KiB perl-vars noarch 1.05-512.fc42 fedora 3.9 KiB petsc-mpich aarch64 3.22.2-1.fc42 copr_sagitter_ForTesting 23.2 MiB petsc-openmpi aarch64 3.22.2-1.fc42 copr_sagitter_ForTesting 23.2 MiB pixman aarch64 0.44.2-1.fc42 fedora 644.4 KiB pmix aarch64 4.2.8-3.fc41 fedora 2.5 MiB poppler aarch64 24.08.0-1.fc42 fedora 3.5 MiB poppler-data noarch 0.4.11-8.fc41 fedora 12.3 MiB poppler-glib aarch64 24.08.0-1.fc42 fedora 665.8 KiB procps-ng aarch64 4.0.4-4.fc41 fedora 4.1 MiB prrte aarch64 3.0.6-1.fc42 fedora 991.0 KiB prrte-libs aarch64 3.0.6-1.fc42 fedora 1.9 MiB ptscotch-mpich aarch64 7.0.6-1.fc42 fedora 1.5 MiB ptscotch-mpich-devel aarch64 7.0.6-1.fc42 fedora 100.2 KiB ptscotch-mpich-devel-parmetis aarch64 7.0.6-1.fc42 fedora 37.9 KiB ptscotch-openmpi aarch64 7.0.6-1.fc42 fedora 1.5 MiB publicsuffix-list noarch 20240107-4.fc41 fedora 318.0 KiB pyproject-rpm-macros noarch 1.16.3-1.fc42 fedora 113.7 KiB python-pip-wheel noarch 24.3.1-1.fc42 fedora 1.2 MiB python-rpm-macros noarch 3.13-3.fc41 fedora 22.1 KiB python3-babel noarch 2.16.0-1.fc42 fedora 28.3 MiB python3-blosc2 aarch64 2.7.1-1.fc42 fedora 1.0 MiB python3-cairo aarch64 1.25.1-5.fc41 fedora 584.5 KiB python3-certifi noarch 2024.08.30-1.fc42 fedora 6.8 KiB python3-cftime aarch64 1.6.4-1.fc41 fedora 624.4 KiB python3-charset-normalizer noarch 3.4.0-1.fc42 fedora 319.9 KiB python3-contourpy aarch64 1.3.1-1.fc42 fedora 826.9 KiB python3-cpuinfo noarch 9.0.0-10.fc42 fedora 307.8 KiB python3-cycler noarch 0.11.0-13.fc41 fedora 37.6 KiB python3-dateutil noarch 1:2.8.2-16.fc41 fedora 879.2 KiB python3-docutils noarch 0.21.2-1.fc42 fedora 4.9 MiB python3-fonttools aarch64 4.55.2-1.fc42 fedora 17.9 MiB python3-idna noarch 3.10-1.fc42 fedora 628.0 KiB python3-imagesize noarch 1.4.1-9.fc41 fedora 35.3 KiB python3-kiwisolver aarch64 1.4.7-1.fc42 fedora 289.4 KiB python3-libs aarch64 3.13.0-1.fc42 fedora 49.7 MiB python3-markupsafe aarch64 3.0.2-1.fc42 fedora 112.1 KiB python3-matplotlib aarch64 3.9.3-1.fc42 fedora 21.0 MiB python3-matplotlib-data noarch 3.9.3-1.fc42 fedora 726.7 KiB python3-matplotlib-data-fonts noarch 3.9.3-1.fc42 fedora 7.9 MiB python3-matplotlib-tk aarch64 3.9.3-1.fc42 fedora 296.4 KiB python3-mpmath noarch 1.3.0-10.fc41 fedora 5.2 MiB python3-msgpack aarch64 1.1.0-1.fc42 fedora 414.0 KiB python3-natsort noarch 8.4.0-2.fc41 fedora 252.8 KiB python3-ndindex aarch64 1.7-13.fc41 fedora 4.4 MiB python3-numexpr aarch64 2.8.5-7.fc41 fedora 678.8 KiB python3-numpy-f2py aarch64 1:1.26.4-8.fc41 fedora 2.8 MiB python3-olefile noarch 0.47-5.fc41 fedora 340.4 KiB python3-packaging noarch 24.2-2.fc42 fedora 555.7 KiB python3-pillow aarch64 11.0.0-1.fc42 fedora 4.8 MiB python3-pillow-tk aarch64 11.0.0-1.fc42 fedora 249.0 KiB python3-platformdirs noarch 4.2.2-2.fc41 fedora 168.6 KiB python3-pooch noarch 1.8.2-3.fc41 fedora 625.5 KiB python3-pygments noarch 2.18.0-2.fc42 fedora 10.6 MiB python3-pyparsing noarch 3.1.2-7.fc41 fedora 1.0 MiB python3-requests noarch 2.32.3-3.fc41 fedora 485.9 KiB python3-rpm-generators noarch 14-11.fc41 fedora 81.7 KiB python3-rpm-macros noarch 3.13-3.fc41 fedora 6.4 KiB python3-six noarch 1.16.0-23.fc41 fedora 118.3 KiB python3-snowballstemmer noarch 2.2.0-13.fc41 fedora 1.7 MiB python3-sphinx-theme-alabaster noarch 0.7.16-6.fc41 fedora 41.9 KiB python3-sympy aarch64 1.13.3-1.fc42 fedora 78.3 MiB python3-tkinter aarch64 3.13.0-1.fc42 fedora 2.1 MiB python3-typing-extensions noarch 4.12.2-3.fc41 fedora 464.5 KiB python3-urllib3 noarch 2.2.3-3.fc42 fedora 1.0 MiB rav1e-libs aarch64 0.7.1-4.fc42 fedora 2.1 MiB rhash aarch64 1.4.5-1.fc42 fedora 587.1 KiB rpm-mpi-hooks noarch 8-10.fc41 fedora 8.7 KiB rsvg-pixbuf-loader aarch64 2.59.2-1.fc42 fedora 336.6 KiB scalapack-common aarch64 2.2.0-10.fc41 fedora 26.8 KiB scalapack-mpich aarch64 2.2.0-10.fc41 fedora 4.5 MiB scalapack-openmpi aarch64 2.2.0-10.fc41 fedora 4.5 MiB shared-mime-info aarch64 2.3-6.fc41 fedora 5.3 MiB snappy aarch64 1.2.1-3.fc42 fedora 211.1 KiB source-highlight aarch64 3.1.9-23.fc41 fedora 3.5 MiB suitesparse aarch64 7.7.0-2.fc41 fedora 116.3 MiB suitesparse64 aarch64 7.7.0-2.fc41 fedora 116.3 MiB sundials aarch64 7.1.1-1.fc42 copr_sagitter_ForTesting 5.6 MiB sundials-mpich aarch64 7.1.1-1.fc42 copr_sagitter_ForTesting 6.0 MiB sundials-openmpi aarch64 7.1.1-1.fc42 copr_sagitter_ForTesting 6.0 MiB superlu_dist-mpich aarch64 1:8.2.0-5.fc42 fedora 1.5 MiB superlu_dist-mpich-devel aarch64 1:8.2.0-5.fc42 fedora 621.1 KiB superlu_dist-openmpi aarch64 1:8.2.0-5.fc42 fedora 1.5 MiB superlu_dist-openmpi-devel aarch64 1:8.2.0-5.fc42 fedora 622.4 KiB svt-av1-libs aarch64 2.1.0-2.fc41 fedora 4.2 MiB systemd aarch64 257~rc3-1.fc42 fedora 20.2 MiB systemd-pam aarch64 257~rc3-1.fc42 fedora 1.2 MiB systemd-rpm-macros noarch 257~rc3-1.fc42 fedora 10.7 KiB tcl aarch64 1:8.6.15-6.fc42 fedora 4.3 MiB tcsh aarch64 6.24.14-1.fc42 fedora 1.2 MiB tk aarch64 1:8.6.15-1.fc42 fedora 3.9 MiB torque-libs aarch64 6.1.3-13.fc42 fedora 520.6 KiB tpm2-tss aarch64 4.1.3-3.fc41 fedora 3.6 MiB tzdata noarch 2024a-9.fc41 fedora 1.7 MiB ucx aarch64 1.17.0-3.fc42 fedora 2.6 MiB urw-base35-bookman-fonts noarch 20200910-23.fc41 fedora 1.4 MiB urw-base35-c059-fonts noarch 20200910-23.fc41 fedora 1.4 MiB urw-base35-d050000l-fonts noarch 20200910-23.fc41 fedora 84.3 KiB urw-base35-fonts noarch 20200910-23.fc41 fedora 5.3 KiB urw-base35-fonts-common noarch 20200910-23.fc41 fedora 37.4 KiB urw-base35-gothic-fonts noarch 20200910-23.fc41 fedora 1.2 MiB urw-base35-nimbus-mono-ps-fonts noarch 20200910-23.fc41 fedora 1.0 MiB urw-base35-nimbus-roman-fonts noarch 20200910-23.fc41 fedora 1.4 MiB urw-base35-nimbus-sans-fonts noarch 20200910-23.fc41 fedora 2.4 MiB urw-base35-p052-fonts noarch 20200910-23.fc41 fedora 1.5 MiB urw-base35-standard-symbols-ps-fonts noarch 20200910-23.fc41 fedora 64.9 KiB urw-base35-z003-fonts noarch 20200910-23.fc41 fedora 390.8 KiB vim-filesystem noarch 2:9.1.906-1.fc42 fedora 40.0 B xapian-core-libs aarch64 1.4.26-1.fc42 fedora 2.1 MiB xml-common noarch 0.6.3-65.fc41 fedora 78.4 KiB yaksa aarch64 0.3-6.fc41 fedora 37.5 MiB zlib-ng aarch64 2.2.2-1.fc42 fedora 149.3 KiB Transaction Summary: Installing: 386 packages Total size of inbound packages is 421 MiB. Need to download 421 MiB. After this operation, 2 GiB extra will be used (install 2 GiB, remove 0 B). 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311.7 KiB | 00m00s [334/386] perl-File-stat-0:1.14-512.fc4 100% | 2.8 MiB/s | 17.0 KiB | 00m00s [335/386] perl-SelectSaver-0:1.02-512.f 100% | 2.3 MiB/s | 11.7 KiB | 00m00s [336/386] perl-Symbol-0:1.09-512.fc42.n 100% | 2.8 MiB/s | 14.2 KiB | 00m00s [337/386] perl-Socket-4:2.038-511.fc41. 100% | 9.0 MiB/s | 55.5 KiB | 00m00s [338/386] libgcrypt-0:1.11.0-4.fc42.aar 100% | 71.5 MiB/s | 512.7 KiB | 00m00s [339/386] logrotate-0:3.22.0-2.fc41.aar 100% | 4.0 MiB/s | 74.6 KiB | 00m00s [340/386] libksba-0:1.6.7-2.fc41.aarch6 100% | 25.6 MiB/s | 157.1 KiB | 00m00s [341/386] tpm2-tss-0:4.1.3-3.fc41.aarch 100% | 65.7 MiB/s | 403.5 KiB | 00m00s [342/386] perl-File-Temp-1:0.231.100-51 100% | 9.6 MiB/s | 59.1 KiB | 00m00s [343/386] perl-HTTP-Tiny-0:0.090-1.fc42 100% | 9.2 MiB/s | 56.5 KiB | 00m00s [344/386] npth-0:1.8-1.fc42.aarch64 100% | 1.0 MiB/s | 25.3 KiB | 00m00s [345/386] perl-IPC-Open3-0:1.22-512.fc4 100% | 3.5 MiB/s | 21.8 KiB | 00m00s [346/386] perl-POSIX-0:2.20-512.fc42.aa 100% | 15.8 MiB/s | 97.0 KiB | 00m00s [347/386] perl-Pod-Simple-1:3.45-511.fc 100% | 19.4 MiB/s | 219.0 KiB | 00m00s [348/386] perl-Term-ANSIColor-0:5.01-51 100% | 7.8 MiB/s | 47.7 KiB | 00m00s [349/386] perl-Term-Cap-0:1.18-511.fc41 100% | 4.3 MiB/s | 22.1 KiB | 00m00s [350/386] perl-Class-Struct-0:0.68-512. 100% | 4.3 MiB/s | 22.0 KiB | 00m00s [351/386] dbus-1:1.14.10-4.fc41.aarch64 100% | 1.5 MiB/s | 7.9 KiB | 00m00s [352/386] perl-File-Path-0:2.18-511.fc4 100% | 6.9 MiB/s | 35.3 KiB | 00m00s [353/386] systemd-pam-0:257~rc3-1.fc42. 100% | 57.2 MiB/s | 410.3 KiB | 00m00s [354/386] perl-Net-SSLeay-0:1.94-7.fc41 100% | 52.4 MiB/s | 375.4 KiB | 00m00s [355/386] perl-IO-Socket-SSL-0:2.089-1. 100% | 20.5 MiB/s | 231.2 KiB | 00m00s [356/386] systemd-0:257~rc3-1.fc42.aarc 100% | 66.8 MiB/s | 5.7 MiB | 00m00s [357/386] perl-Time-Local-2:1.350-511.f 100% | 3.4 MiB/s | 34.5 KiB | 00m00s [358/386] perl-Pod-Escapes-1:1.07-511.f 100% | 3.2 MiB/s | 19.8 KiB | 00m00s [359/386] perl-Text-Tabs+Wrap-0:2024.00 100% | 3.6 MiB/s | 21.9 KiB | 00m00s [360/386] perl-if-0:0.61.000-512.fc42.n 100% | 2.7 MiB/s | 14.0 KiB | 00m00s [361/386] perl-locale-0:1.12-512.fc42.n 100% | 2.2 MiB/s | 13.6 KiB | 00m00s [362/386] perl-IO-Socket-IP-0:0.43-1.fc 100% | 8.2 MiB/s | 42.2 KiB | 00m00s [363/386] dbus-broker-0:36-4.fc41.aarch 100% | 27.2 MiB/s | 167.3 KiB | 00m00s [364/386] ncurses-0:6.5-2.20240629.fc41 100% | 59.0 MiB/s | 422.6 KiB | 00m00s [365/386] perl-URI-0:5.31-1.fc42.noarch 100% | 22.9 MiB/s | 140.6 KiB | 00m00s [366/386] perl-AutoLoader-0:5.74-512.fc 100% | 4.1 MiB/s | 21.2 KiB | 00m00s [367/386] dbus-common-1:1.14.10-4.fc41. 100% | 2.4 MiB/s | 14.7 KiB | 00m00s [368/386] perl-MIME-Base32-0:1.303-21.f 100% | 4.0 MiB/s | 20.5 KiB | 00m00s [369/386] perl-Data-Dumper-0:2.189-512. 100% | 9.0 MiB/s | 55.1 KiB | 00m00s [370/386] perl-libnet-0:3.15-512.fc41.n 100% | 20.9 MiB/s | 128.5 KiB | 00m00s [371/386] perl-Digest-MD5-0:2.59-5.fc41 100% | 7.0 MiB/s | 36.1 KiB | 00m00s [372/386] perl-B-0:1.89-512.fc42.aarch6 100% | 28.8 MiB/s | 177.1 KiB | 00m00s [373/386] perl-FileHandle-0:2.05-512.fc 100% | 2.5 MiB/s | 15.5 KiB | 00m00s [374/386] perl-Digest-0:1.20-511.fc41.n 100% | 4.1 MiB/s | 24.9 KiB | 00m00s [375/386] hypre-openmpi-0:2.32.0-1.fc42 100% | 189.3 MiB/s | 1.7 MiB | 00m00s [376/386] hypre-mpich-0:2.32.0-1.fc42.a 100% | 141.7 MiB/s | 1.7 MiB | 00m00s [377/386] gcc-plugin-annobin-0:14.2.1-6 100% | 11.2 MiB/s | 57.3 KiB | 00m00s [378/386] annobin-plugin-gcc-0:12.77-1. 100% | 79.5 MiB/s | 977.4 KiB | 00m00s [379/386] hdf-libs-0:4.3.0-1.fc42.aarch 100% | 13.6 MiB/s | 277.5 KiB | 00m00s [380/386] annobin-docs-0:12.77-1.fc42.n 100% | 15.0 MiB/s | 92.4 KiB | 00m00s [381/386] systemd-rpm-macros-0:257~rc3- 100% | 6.7 MiB/s | 34.4 KiB | 00m00s [382/386] pyproject-rpm-macros-0:1.16.3 100% | 8.7 MiB/s | 44.6 KiB | 00m00s [383/386] python-rpm-macros-0:3.13-3.fc 100% | 3.5 MiB/s | 17.7 KiB | 00m00s [384/386] python3-rpm-generators-0:14-1 100% | 5.7 MiB/s | 29.3 KiB | 00m00s [385/386] python3-rpm-macros-0:3.13-3.f 100% | 2.0 MiB/s | 12.4 KiB | 00m00s [386/386] cmake-rpm-macros-0:3.31.2-1.f 100% | 3.3 MiB/s | 16.9 KiB | 00m00s -------------------------------------------------------------------------------- [386/386] Total 100% | 69.6 MiB/s | 421.0 MiB | 00m06s Running transaction [ 1/388] Verify package files 100% | 255.0 B/s | 386.0 B | 00m02s [ 2/388] Prepare transaction 100% | 1.1 KiB/s | 386.0 B | 00m00s [ 3/388] Installing libgfortran-0:14.2 100% | 253.6 MiB/s | 1.5 MiB | 00m00s [ 4/388] Installing cmake-filesystem-0 100% | 3.7 MiB/s | 7.6 KiB | 00m00s [ 5/388] Installing libjpeg-turbo-0:3. 100% | 259.9 MiB/s | 798.5 KiB | 00m00s [ 6/388] Installing libpng-2:1.6.44-1. 100% | 163.7 MiB/s | 335.2 KiB | 00m00s [ 7/388] Installing nspr-0:4.36.0-1.fc 100% | 211.2 MiB/s | 432.6 KiB | 00m00s [ 8/388] Installing fonts-filesystem-1 100% | 0.0 B/s | 788.0 B | 00m00s [ 9/388] Installing urw-base35-fonts-c 100% | 37.5 MiB/s | 38.4 KiB | 00m00s [ 10/388] Installing metis-0:5.1.0.3-6. 100% | 409.6 MiB/s | 2.0 MiB | 00m00s [ 11/388] Installing hwloc-libs-0:2.11. 100% | 416.0 MiB/s | 2.9 MiB | 00m00s [ 12/388] Installing libaec-0:1.1.3-1.f 100% | 201.5 MiB/s | 412.6 KiB | 00m00s [ 13/388] Installing expat-0:2.6.4-1.fc 100% | 171.6 MiB/s | 351.4 KiB | 00m00s [ 14/388] Installing libgpg-error-0:1.5 100% | 187.7 MiB/s | 960.9 KiB | 00m00s [ 15/388] Installing libwebp-0:1.4.0-4. 100% | 309.7 MiB/s | 1.2 MiB | 00m00s [ 16/388] Installing nss-util-0:3.106.0 100% | 214.5 MiB/s | 219.7 KiB | 00m00s [ 17/388] Installing zlib-ng-compat-dev 100% | 105.8 MiB/s | 108.3 KiB | 00m00s [ 18/388] Installing libmpc-0:1.3.1-6.f 100% | 137.8 MiB/s | 282.3 KiB | 00m00s [ 19/388] Installing libassuan-0:2.5.7- 100% | 137.5 MiB/s | 281.7 KiB | 00m00s [ 20/388] Installing hdf5-0:1.14.5-1.fc 100% | 288.8 MiB/s | 8.1 MiB | 00m00s [ 21/388] Installing libaec-devel-0:1.1 100% | 13.2 MiB/s | 13.5 KiB | 00m00s [ 22/388] Installing python-rpm-macros- 100% | 22.3 MiB/s | 22.8 KiB | 00m00s [ 23/388] Installing openblas-0:0.3.28- 100% | 105.8 MiB/s | 108.3 KiB | 00m00s [ 24/388] Installing libnl3-0:3.11.0-1. 100% | 260.1 MiB/s | 1.3 MiB | 00m00s [ 25/388] Installing libibverbs-0:54.0- 100% | 208.7 MiB/s | 1.7 MiB | 00m00s [ 26/388] Installing openjpeg-0:2.5.2-4 100% | 175.7 MiB/s | 539.7 KiB | 00m00s [ 27/388] Installing lcms2-0:2.16-4.fc4 100% | 237.6 MiB/s | 486.5 KiB | 00m00s [ 28/388] Installing munge-libs-0:0.5.1 100% | 192.4 MiB/s | 197.0 KiB | 00m00s [ 29/388] Installing pmix-0:4.2.8-3.fc4 100% | 283.4 MiB/s | 2.6 MiB | 00m00s [ 30/388] Installing tcl-1:8.6.15-6.fc4 100% | 228.7 MiB/s | 4.3 MiB | 00m00s [ 31/388] Installing python3-rpm-macros 100% | 0.0 B/s | 6.7 KiB | 00m00s [ 32/388] Installing scalapack-common-0 100% | 27.6 MiB/s | 28.3 KiB | 00m00s [ 33/388] Installing python3-matplotlib 100% | 316.5 MiB/s | 7.9 MiB | 00m00s [ 34/388] Installing python3-matplotlib 100% | 145.0 MiB/s | 742.6 KiB | 00m00s [ 35/388] Installing libseccomp-0:2.5.5 100% | 118.8 MiB/s | 243.3 KiB | 00m00s [ 36/388] Installing libICE-0:1.1.1-4.f 100% | 268.1 MiB/s | 274.5 KiB | 00m00s [ 37/388] Installing MUMPS-common-0:5.7 100% | 483.1 MiB/s | 989.4 KiB | 00m00s [ 38/388] Installing fribidi-0:1.0.16-1 100% | 246.6 MiB/s | 505.1 KiB | 00m00s [ 39/388] Installing adobe-mappings-cma 100% | 310.0 MiB/s | 15.2 MiB | 00m00s [ 40/388] Installing libimagequant-0:4. 100% | 93.3 MiB/s | 668.7 KiB | 00m00s [ 41/388] Installing tzdata-0:2024a-9.f 100% | 38.1 MiB/s | 1.9 MiB | 00m00s [ 42/388] Installing libtextstyle-0:0.2 100% | 258.0 MiB/s | 264.2 KiB | 00m00s [ 43/388] Installing gettext-libs-0:0.2 100% | 254.2 MiB/s | 2.0 MiB | 00m00s [ 44/388] Installing libatomic-0:14.2.1 100% | 68.2 MiB/s | 69.8 KiB | 00m00s [ 45/388] Installing fftw-libs-single-0 100% | 294.9 MiB/s | 2.4 MiB | 00m00s [ 46/388] Installing fftw-libs-long-0:3 100% | 296.7 MiB/s | 2.7 MiB | 00m00s [ 47/388] Installing fftw-libs-double-0 100% | 143.5 MiB/s | 2.3 MiB | 00m00s [ 48/388] Installing groff-base-0:1.23. 100% | 173.3 MiB/s | 5.2 MiB | 00m00s [ 49/388] Installing vim-filesystem-2:9 100% | 2.3 MiB/s | 4.7 KiB | 00m00s [ 50/388] Installing less-0:668-1.fc42. 100% | 213.3 MiB/s | 873.6 KiB | 00m00s [ 51/388] Installing jsoncpp-0:1.9.5-8. 100% | 164.7 MiB/s | 337.3 KiB | 00m00s [ 52/388] Installing make-1:4.4.1-9.fc4 100% | 205.7 MiB/s | 1.9 MiB | 00m00s [ 53/388] Installing fftw-0:3.3.10-13.f 100% | 296.9 MiB/s | 608.0 KiB | 00m00s [ 54/388] Installing fftw-libs-0:3.3.10 100% | 0.0 B/s | 124.0 B | 00m00s [ 55/388] Installing adobe-mappings-cma 100% | 190.5 MiB/s | 585.2 KiB | 00m00s [ 56/388] Installing libSM-0:1.2.4-4.fc 100% | 248.8 MiB/s | 254.7 KiB | 00m00s [ 57/388] Installing pyproject-rpm-macr 100% | 113.0 MiB/s | 115.7 KiB | 00m00s [ 58/388] Installing librdmacm-0:54.0-3 100% | 103.9 MiB/s | 212.8 KiB | 00m00s [ 59/388] Installing libfabric-0:1.22.0 100% | 301.2 MiB/s | 2.1 MiB | 00m00s [ 60/388] Installing openblas-openmp-0: 100% | 395.5 MiB/s | 20.6 MiB | 00m00s [ 61/388] Installing flexiblas-netlib-0 100% | 339.2 MiB/s | 9.8 MiB | 00m00s [ 62/388] Installing flexiblas-0:3.4.4- 100% | 48.5 MiB/s | 49.7 KiB | 00m00s [ 63/388] Installing flexiblas-openblas 100% | 191.7 MiB/s | 196.3 KiB | 00m00s [ 64/388] Installing suitesparse-0:7.7. 100% | 402.6 MiB/s | 116.3 MiB | 00m00s [ 65/388] Installing openblas-openmp64- 100% | 417.3 MiB/s | 20.4 MiB | 00m00s [ 66/388] Installing flexiblas-netlib64 100% | 334.9 MiB/s | 9.7 MiB | 00m00s [ 67/388] Installing flexiblas-openblas 100% | 191.7 MiB/s | 196.3 KiB | 00m00s [ 68/388] Installing openblas-serial-0: 100% | 407.6 MiB/s | 19.6 MiB | 00m00s [ 69/388] Installing suitesparse64-0:7. 100% | 404.0 MiB/s | 116.3 MiB | 00m00s [ 70/388] Installing cpp-0:14.2.1-6.fc4 100% | 301.2 MiB/s | 33.7 MiB | 00m00s [ 71/388] Installing nss-softokn-freebl 100% | 185.3 MiB/s | 759.1 KiB | 00m00s [ 72/388] Installing nss-softokn-0:3.10 100% | 312.3 MiB/s | 2.2 MiB | 00m00s [ 73/388] Installing nss-sysinit-0:3.10 100% | 69.7 MiB/s | 71.4 KiB | 00m00s [ 74/388] Installing nss-0:3.106.0-1.fc 100% | 141.6 MiB/s | 2.0 MiB | 00m00s [ 75/388] Installing libgcrypt-0:1.11.0 100% | 226.1 MiB/s | 1.1 MiB | 00m00s [ 76/388] Installing libksba-0:1.6.7-2. 100% | 172.2 MiB/s | 529.0 KiB | 00m00s [ 77/388] Installing graphviz-libs-0:12 100% | 222.7 MiB/s | 1.3 MiB | 00m00s [ 78/388] Installing hdf-libs-0:4.3.0-1 100% | 277.5 MiB/s | 852.6 KiB | 00m00s [ 79/388] Installing urw-base35-bookman 100% | 97.5 MiB/s | 1.4 MiB | 00m00s [ 80/388] Installing urw-base35-c059-fo 100% | 126.8 MiB/s | 1.4 MiB | 00m00s [ 81/388] Installing urw-base35-d050000 100% | 10.4 MiB/s | 85.4 KiB | 00m00s [ 82/388] Installing urw-base35-gothic- 100% | 105.7 MiB/s | 1.2 MiB | 00m00s [ 83/388] Installing urw-base35-nimbus- 100% | 105.2 MiB/s | 1.1 MiB | 00m00s [ 84/388] Installing urw-base35-nimbus- 100% | 113.8 MiB/s | 1.4 MiB | 00m00s [ 85/388] Installing urw-base35-nimbus- 100% | 159.6 MiB/s | 2.4 MiB | 00m00s [ 86/388] Installing urw-base35-p052-fo 100% | 124.0 MiB/s | 1.5 MiB | 00m00s [ 87/388] Installing urw-base35-standar 100% | 8.1 MiB/s | 66.0 KiB | 00m00s [ 88/388] Installing urw-base35-z003-fo 100% | 42.5 MiB/s | 391.8 KiB | 00m00s [ 89/388] Installing urw-base35-fonts-0 100% | 5.5 MiB/s | 5.6 KiB | 00m00s [ 90/388] Installing dejavu-sans-fonts- 100% | 306.0 MiB/s | 5.5 MiB | 00m00s [ 91/388] Installing google-droid-sans- 100% | 284.5 MiB/s | 6.3 MiB | 00m00s [ 92/388] Installing abattis-cantarell- 100% | 94.9 MiB/s | 194.4 KiB | 00m00s [ 93/388] Installing libssh-devel-0:0.1 100% | 88.0 MiB/s | 180.3 KiB | 00m00s [ 94/388] Installing annobin-docs-0:12. 100% | 97.2 MiB/s | 99.5 KiB | 00m00s [ 95/388] Installing dbus-common-1:1.14 100% | 564.6 KiB/s | 13.6 KiB | 00m00s [ 96/388] Installing dbus-broker-0:36-4 100% | 60.2 MiB/s | 616.8 KiB | 00m00s [ 97/388] Installing dbus-1:1.14.10-4.f 100% | 121.1 KiB/s | 124.0 B | 00m00s [ 98/388] Installing systemd-pam-0:257~ 100% | 146.4 MiB/s | 1.2 MiB | 00m00s [ 99/388] Installing systemd-0:257~rc3- 100% | 94.4 MiB/s | 20.3 MiB | 00m00s >>> Running post-install scriptlet: systemd-0:257~rc3-1.fc42.aarch64 >>> Finished post-install scriptlet: systemd-0:257~rc3-1.fc42.aarch64 >>> Scriptlet output: >>> Creating group 'systemd-journal' with GID 190. >>> Creating group 'systemd-oom' with GID 999. >>> Creating user 'systemd-oom' (systemd Userspace OOM Killer) with UID 999 and >>> [100/388] Installing logrotate-0:3.22.0 100% | 7.6 MiB/s | 255.7 KiB | 00m00s >>> Running post-install scriptlet: logrotate-0:3.22.0-2.fc41.aarch64 >>> Finished post-install scriptlet: logrotate-0:3.22.0-2.fc41.aarch64 >>> Scriptlet output: >>> Created symlink '/etc/systemd/system/timers.target.wants/logrotate.timer' ↠>>> [101/388] Installing munge-0:0.5.16-3.f 100% | 55.9 MiB/s | 1.1 MiB | 00m00s [102/388] Installing torque-libs-0:6.1. 100% | 169.7 MiB/s | 521.4 KiB | 00m00s [103/388] Installing prrte-libs-0:3.0.6 100% | 190.5 MiB/s | 1.9 MiB | 00m00s [104/388] Installing prrte-0:3.0.6-1.fc 100% | 323.9 MiB/s | 994.9 KiB | 00m00s [105/388] Installing ncurses-0:6.5-2.20 100% | 337.8 MiB/s | 1.7 MiB | 00m00s [106/388] Installing perl-Digest-0:1.20 100% | 36.2 MiB/s | 37.1 KiB | 00m00s [107/388] Installing perl-B-0:1.89-512. 100% | 198.4 MiB/s | 609.4 KiB | 00m00s [108/388] Installing perl-FileHandle-0: 100% | 0.0 B/s | 9.8 KiB | 00m00s [109/388] Installing perl-Digest-MD5-0: 100% | 114.1 MiB/s | 233.8 KiB | 00m00s [110/388] Installing perl-MIME-Base32-0 100% | 31.4 MiB/s | 32.2 KiB | 00m00s [111/388] Installing perl-Data-Dumper-0 100% | 129.7 MiB/s | 265.7 KiB | 00m00s [112/388] Installing perl-libnet-0:3.15 100% | 143.9 MiB/s | 294.7 KiB | 00m00s [113/388] Installing perl-IO-Socket-IP- 100% | 99.8 MiB/s | 102.2 KiB | 00m00s [114/388] Installing perl-AutoLoader-0: 100% | 20.5 MiB/s | 20.9 KiB | 00m00s [115/388] Installing perl-URI-0:5.31-1. 100% | 65.8 MiB/s | 269.6 KiB | 00m00s [116/388] Installing perl-File-Path-0:2 100% | 63.0 MiB/s | 64.5 KiB | 00m00s [117/388] Installing perl-Time-Local-2: 100% | 68.9 MiB/s | 70.6 KiB | 00m00s [118/388] Installing perl-Pod-Escapes-1 100% | 25.3 MiB/s | 25.9 KiB | 00m00s [119/388] Installing perl-Text-Tabs+Wra 100% | 23.3 MiB/s | 23.9 KiB | 00m00s [120/388] Installing perl-if-0:0.61.000 100% | 0.0 B/s | 6.2 KiB | 00m00s [121/388] Installing perl-locale-0:1.12 100% | 6.7 MiB/s | 6.9 KiB | 00m00s [122/388] Installing perl-Net-SSLeay-0: 100% | 179.1 MiB/s | 1.4 MiB | 00m00s [123/388] Installing perl-IO-Socket-SSL 100% | 230.3 MiB/s | 707.4 KiB | 00m00s [124/388] Installing perl-Term-ANSIColo 100% | 96.9 MiB/s | 99.2 KiB | 00m00s [125/388] Installing perl-Term-Cap-0:1. 100% | 29.9 MiB/s | 30.6 KiB | 00m00s [126/388] Installing perl-Class-Struct- 100% | 0.0 B/s | 25.9 KiB | 00m00s [127/388] Installing perl-File-Temp-1:0 100% | 160.2 MiB/s | 164.1 KiB | 00m00s [128/388] Installing perl-IPC-Open3-0:1 100% | 22.7 MiB/s | 23.3 KiB | 00m00s [129/388] Installing perl-POSIX-0:2.20- 100% | 160.4 MiB/s | 328.5 KiB | 00m00s [130/388] Installing perl-HTTP-Tiny-0:0 100% | 76.4 MiB/s | 156.4 KiB | 00m00s [131/388] Installing perl-Pod-Simple-1: 100% | 139.3 MiB/s | 570.5 KiB | 00m00s [132/388] Installing perl-Socket-4:2.03 100% | 133.9 MiB/s | 274.1 KiB | 00m00s [133/388] Installing perl-SelectSaver-0 100% | 0.0 B/s | 2.6 KiB | 00m00s [134/388] Installing perl-Symbol-0:1.09 100% | 0.0 B/s | 7.2 KiB | 00m00s [135/388] Installing perl-File-stat-0:1 100% | 12.7 MiB/s | 13.1 KiB | 00m00s [136/388] Installing perl-Pod-Perldoc-0 100% | 82.6 MiB/s | 169.3 KiB | 00m00s [137/388] Installing perl-podlators-1:6 100% | 157.0 MiB/s | 321.4 KiB | 00m00s [138/388] Installing perl-Text-ParseWor 100% | 14.2 MiB/s | 14.6 KiB | 00m00s [139/388] Installing perl-base-0:2.27-5 100% | 0.0 B/s | 12.9 KiB | 00m00s [140/388] Installing perl-Fcntl-0:1.18- 100% | 217.0 MiB/s | 222.2 KiB | 00m00s [141/388] Installing perl-mro-0:1.29-51 100% | 205.9 MiB/s | 210.8 KiB | 00m00s [142/388] Installing perl-overloading-0 100% | 5.4 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Finish: build setup for bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.src.rpm Start: rpmbuild bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.src.rpm Building target platforms: aarch64 Building for target aarch64 setting SOURCE_DATE_EPOCH=1733702400 Executing(%mkbuilddir): /bin/sh -e /var/tmp/rpm-tmp.ur89i7 + umask 022 + cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + test -d /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + /usr/bin/rm -rf /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + /usr/bin/mkdir -p /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + /usr/bin/mkdir -p /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/SPECPARTS + RPM_EC=0 ++ jobs -p + exit 0 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.ofjhHL + umask 022 + cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + rm -rf BOUT++-v5.2.0.dev574+ge3f21cd2f + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/BOUT++-v5.2.0.dev574+ge3f21cd2f.tar.xz + STATUS=0 + '[' 0 -ne 0 ']' + cd BOUT++-v5.2.0.dev574+ge3f21cd2f + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + sed -e 's/html_theme = "sphinx_book_theme"/html_theme = "sphinxdoc"/' -i manual/sphinx/conf.py + rm -rf externalpackages/mpark.variant/ + mkdir -p externalpackages/mpark.variant/include/ + rm -rf tools/pylib/boutdata + rm -rf tools/pylib/boututils ++ find -L tools/pylib/ -type f ++ grep -v _boutcore_build + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/.gitignore + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/Makefile + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/README.md + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/.gitignore + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/CMakeLists.txt + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/GENERATION.md + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/Makefile + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/backend.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/bout_options.pxd + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/boutcpp.pxd.jinja + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/boutexception_helper.cxx + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/boutexception_helper.hxx + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/boutpp.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/boutpp.pyx.jinja + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/boutpp_openmpi_compat.hxx + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/debug_helper.hxx + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/debug_setup.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/generate.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/geninput.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/helper.cxx.jinja + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/helper.h.jinja + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/helper.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/other_enums.hxx + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/resolve_enum.pxd.jinja + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/resolve_enum_inv.pyx.jinja + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/scan_enums.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/_boutpp_build/setup.py + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/boutconfig/__init__.py.cin + for f in $(find -L tools/pylib/ -type f | grep -v _boutcore_build) + sed -i '/^#!\//d' tools/pylib/boutconfig/__init__.py.in + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.2uNVzJ + umask 022 + cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd BOUT++-v5.2.0.dev574+ge3f21cd2f + export CC=mpicc + CC=mpicc + export CXX=mpicxx + CXX=mpicxx + for mpi in openmpi mpich + mkdir build_openmpi + for mpi in openmpi mpich + mkdir build_mpich + for mpi in openmpi mpich + '[' openmpi = mpich ']' + '[' openmpi = openmpi ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ '[' sh = sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD ']' +++ '[' LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' __MODULES_QUARANTINE_SET=1 ' ++++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' __MODULES_QUARANTINE_SET=1 /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ __MODULES_QUARANTINE_SET=1 +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval '_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ unset __MODULES_AUTOINIT_INPROGRESS ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' /bin/sh '!=' '' ']' +++ export -f _module_raw +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ unset _mlcode _mlret +++ '[' -n '' ']' + module load mpi/openmpi-aarch64 + local _mlredir=0 + '[' -n '' ']' + case " $@ " in + '[' 0 -eq 0 ']' + _module_raw load mpi/openmpi-aarch64 ++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh load mpi/openmpi-aarch64 + eval 'MPI_COMPILER=openmpi-aarch64; export MPI_COMPILER; LD_LIBRARY_PATH=/usr/lib64/openmpi/lib; export LD_LIBRARY_PATH; MPI_MAN=/usr/share/man/openmpi-aarch64; export MPI_MAN; MANPATH=/usr/share/man/openmpi-aarch64:/usr/share/man:; export MANPATH; MPI_INCLUDE=/usr/include/openmpi-aarch64; export MPI_INCLUDE; _LMFILES_=/usr/share/modulefiles/mpi/openmpi-aarch64; export _LMFILES_; LOADEDMODULES=mpi/openmpi-aarch64; export LOADEDMODULES; CMAKE_PREFIX_PATH=/usr/lib64/openmpi; export CMAKE_PREFIX_PATH; PKG_CONFIG_PATH=/usr/lib64/openmpi/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig; export PKG_CONFIG_PATH; MPI_PYTHON3_SITEARCH=/usr/lib64/python3.13/site-packages/openmpi; export MPI_PYTHON3_SITEARCH; MPI_HOME=/usr/lib64/openmpi; export MPI_HOME; MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi; export MPI_FORTRAN_MOD_DIR; __MODULES_LMALTNAME=mpi/openmpi-aarch64\&as\|mpi/default\&as\|mpi/latest; export __MODULES_LMALTNAME; __MODULES_LMCONFLICT=mpi/openmpi-aarch64\&mpi; export __MODULES_LMCONFLICT; __MODULES_SHARE_MANPATH=:2; export __MODULES_SHARE_MANPATH; MPI_SUFFIX=_openmpi; export MPI_SUFFIX; MPI_SYSCONFIG=/etc/openmpi-aarch64; export MPI_SYSCONFIG; __MODULES_SHARE_PKG_CONFIG_PATH=:1; export __MODULES_SHARE_PKG_CONFIG_PATH; MPI_LIB=/usr/lib64/openmpi/lib; export MPI_LIB; PATH=/usr/lib64/openmpi/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin; export PATH; MPI_BIN=/usr/lib64/openmpi/bin; export MPI_BIN; test 0;' ++ MPI_COMPILER=openmpi-aarch64 ++ export MPI_COMPILER ++ LD_LIBRARY_PATH=/usr/lib64/openmpi/lib ++ export LD_LIBRARY_PATH ++ MPI_MAN=/usr/share/man/openmpi-aarch64 ++ export MPI_MAN ++ MANPATH=/usr/share/man/openmpi-aarch64:/usr/share/man: ++ export MANPATH ++ MPI_INCLUDE=/usr/include/openmpi-aarch64 ++ export MPI_INCLUDE ++ _LMFILES_=/usr/share/modulefiles/mpi/openmpi-aarch64 ++ export _LMFILES_ ++ LOADEDMODULES=mpi/openmpi-aarch64 ++ export LOADEDMODULES ++ CMAKE_PREFIX_PATH=/usr/lib64/openmpi ++ export CMAKE_PREFIX_PATH ++ PKG_CONFIG_PATH=/usr/lib64/openmpi/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MPI_PYTHON3_SITEARCH=/usr/lib64/python3.13/site-packages/openmpi ++ export MPI_PYTHON3_SITEARCH ++ MPI_HOME=/usr/lib64/openmpi ++ export MPI_HOME ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi ++ export MPI_FORTRAN_MOD_DIR ++ __MODULES_LMALTNAME='mpi/openmpi-aarch64&as|mpi/default&as|mpi/latest' ++ export __MODULES_LMALTNAME ++ __MODULES_LMCONFLICT='mpi/openmpi-aarch64&mpi' ++ export __MODULES_LMCONFLICT ++ __MODULES_SHARE_MANPATH=:2 ++ export __MODULES_SHARE_MANPATH ++ MPI_SUFFIX=_openmpi ++ export MPI_SUFFIX ++ MPI_SYSCONFIG=/etc/openmpi-aarch64 ++ export MPI_SYSCONFIG ++ __MODULES_SHARE_PKG_CONFIG_PATH=:1 ++ export __MODULES_SHARE_PKG_CONFIG_PATH ++ MPI_LIB=/usr/lib64/openmpi/lib ++ export MPI_LIB ++ PATH=/usr/lib64/openmpi/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ MPI_BIN=/usr/lib64/openmpi/bin ++ export MPI_BIN ++ test 0 + _mlstatus=0 + return 0 + export PRTE_MCA_rmaps_default_mapping_policy=:oversubscribe + PRTE_MCA_rmaps_default_mapping_policy=:oversubscribe + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=mpicc + export CC + CXX=mpicxx + export CXX + /usr/bin/cmake -S . -B build_openmpi -DCMAKE_C_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_CXX_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_Fortran_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON -DCMAKE_INSTALL_DO_STRIP:BOOL=OFF -DCMAKE_INSTALL_PREFIX:PATH=/usr -DINCLUDE_INSTALL_DIR:PATH=/usr/include -DLIB_INSTALL_DIR:PATH=/usr/lib64 -DSYSCONF_INSTALL_DIR:PATH=/etc -DSHARE_INSTALL_PREFIX:PATH=/usr/share -DLIB_SUFFIX=64 -DBUILD_SHARED_LIBS:BOOL=ON -DBOUT_USE_FFTW=ON -DBOUT_USE_NETCDF=ON -DBOUT_USE_SCOREP=OFF -DBOUT_USE_SYSTEM_MPARK_VARIANT=ON -DBOUT_USE_LAPACK=ON -DBOUT_USE_NLS=ON -DBOUT_USE_SYSTEM_FMT=ON -DBOUT_USE_UUID_SYSTEM_GENERATOR=ON -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_INSTALL_LIBDIR=/usr/lib64/openmpi/lib -DCMAKE_INSTALL_BINDIR=/usr/lib64/openmpi/bin -DCMAKE_INSTALL_INCLUDEDIR=/usr/include/openmpi-aarch64/bout++/ -DCMAKE_INSTALL_DATAROOTDIR=/usr/share -DCMAKE_INSTALL_PYTHON_SITEARCH=/usr/lib64/python3.13/site-packages/openmpi -DBOUT_TEST_TIMEOUT=900 -DBOUT_BUILD_DOCS=ON -DBOUT_USE_PETSC=ON -DBOUT_USE_SUNDIALS=ON -- Configuring BOUT++ version 5.2.0 -- The CXX compiler identification is GNU 14.2.1 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/lib64/openmpi/bin/mpicxx - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found Python3: /usr/bin/python3.13 (found version "3.13.0") found components: Interpreter -- Could NOT find ClangFormat (missing: ClangFormat_BIN) CMake Warning (dev) at CMakeLists.txt:396 (message): 'src/field/generated_fieldops.cxx' will not be regenerated when you make changes to either 'src/field/gen_fieldops.py' or 'src/field/gen_fieldops.jinja'. This is because either Python3 or clang-format is missing (see above messages for more information) or BOUT_GENERATE_FIELDOPS is OFF (current value: OFF). This warning is only important for BOUT++ developers and can otherwise be safely ignored. This warning is for project developers. Use -Wno-dev to suppress it. -- Found Python3: /usr/bin/python3.13 (found suitable version "3.13.0", minimum required is "3.6") found components: Interpreter Development Development.Module Development.Embed -- Found Numpy: /usr/include (found version "1.26.4") -- Found Cython: TRUE (found version "3.0.11") -- Found Bash: /usr/bin/bash (found version "5.2.37") -- Building BOUT++ Python interface -- Found MPI_CXX: /usr/lib64/openmpi/bin/mpicxx (found version "3.1") -- Found MPI: TRUE (found version "3.1") -- Enable OpenMP: OFF -- HYPRE support: OFF -- Found PkgConfig: /usr/bin/pkg-config (found version "2.3.0") -- Checking for one of the modules 'PETSc>3.4.0;petsc>3.4.0' -- Found PETSc: /usr/include/openmpi-aarch64/petsc -- PETSc support: ON -- Using external mpark.variant -- Using external fmt CMake Deprecation Warning at externalpackages/PVODE/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- PVODE support: ON -- Found netCDF: /usr/lib64/libnetcdf.so (found version "4.9.2") -- Found netCDFCxx version 4.3.1 -- Found netCDFCxx: /usr/lib64/libnetcdf_c++4.so (found version "4.3.1") -- NetCDF support: ON CMake Warning at cmake/SetupBOUTThirdParty.cmake:217 (find_package): By not providing "FindADIOS2.cmake" in CMAKE_MODULE_PATH this project has asked CMake to find a package configuration file provided by "ADIOS2", but CMake did not find one. Could not find a package configuration file provided by "ADIOS2" with any of the following names: ADIOS2Config.cmake adios2-config.cmake Add the installation prefix of "ADIOS2" to CMAKE_PREFIX_PATH or set "ADIOS2_DIR" to a directory containing one of the above files. If "ADIOS2" provides a separate development package or SDK, be sure it has been installed. Call Stack (most recent call first): CMakeLists.txt:479 (include) -- ADIOS2 support: OFF -- Found FFTW: /usr/lib64/libfftw3.so -- FFTW support: ON -- Looking for sgemm_ -- Looking for sgemm_ - not found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Looking for sgemm_ -- Looking for sgemm_ - found -- Found BLAS: /usr/lib64/libflexiblas.so -- Looking for cheev_ -- Looking for cheev_ - found -- Found LAPACK: /usr/lib64/libflexiblas.so;-lm;-ldl -- LAPACK support: TRUE -- SLEPc support: OFF -- The C compiler identification is GNU 14.2.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/lib64/openmpi/bin/mpicc - skipped -- Detecting C compile features -- Detecting C compile features - done -- SUNDIALS support: ON -- Found Gettext: /usr/bin/msgmerge (found version "0.22.5") -- Found Intl: built in to C library -- libuuid not found, using fallback UUID generator -- UUID_SYSTEM_GENERATOR: FALSE -- Enable coverage: OFF -- Git revision: Unknown -- Performing Test HAS_FLAG__Wnull_dereference -- Performing Test HAS_FLAG__Wnull_dereference - Success -- Warning flag is supported by compiler: -Wnull-dereference -- Found negative flag: -Wno-cast-function-type replaced with -Wcast-function-type -- Performing Test HAS_FLAG__Wno_cast_function_type -- Performing Test HAS_FLAG__Wno_cast_function_type - Success -- Warning flag is supported by compiler: -Wno-cast-function-type -- Runtime checking level: CHECK=2 -- Message stack: BOUT_USE_MSGSTACK=ON -- Extra debug output: BOUT_USE_OUTPUT_DEBUG=OFF -- Signal handling: BOUT_USE_SIGNAL=ON -- Output coloring: BOUT_USE_COLOR=ON -- Field name tracking: BOUT_USE_TRACK=ON -- Signalling floating point exceptions: BOUT_USE_SIGFPE=OFF -- Enable backtrace: BOUT_USE_BACKTRACE=ON -- Performing Test HAS_PRETTY_FUNCTION -- Performing Test HAS_PRETTY_FUNCTION - Success -- Setting build type to 'RelWithDebInfo' as none was specified. -- Found Python3: /usr/bin/python3.13 (found version "3.13.0") found components: Interpreter -- Not building test test-laplace-hypre3d, requirement not met: BOUT_HAS_HYPRE -- Not building test test-laplacexy2-hypre, requirement not met: BOUT_HAS_HYPRE -- Not building test test-options-adios, requirement not met: BOUT_HAS_ADIOS2 -- Not building test test-slepc-solver, requirement not met: BOUT_HAS_SLEPC -- Not building test MMS-advection-arakawa, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-advection-central, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-advection-upwind, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-advection-weno3, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-diffusion2, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-hw, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-laplace, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-spatial-advection, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-spatial-d2dx2, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-spatial-d2dz2, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-spatial-diffusion, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-time, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-time-petsc, requirement not met: BOUT_RUN_ALL_TESTS -- Not building example test_laplacexy_hypre, requirement not met: BOUT_HAS_HYPRE -- Found Doxygen: /usr/bin/doxygen (found version "1.12.0") found components: doxygen dot -- Found Sphinx: /usr/bin/sphinx-build -------------------------------- BOUT++ Configuration Summary -------------------------------- Bundled PVODE support : ON PETSc support : ON SLEPc support : OFF SUNDIALS support : ON HYPRE support : OFF NetCDF support : ON ADIOS2 support : OFF FFTW support : ON LAPACK support : TRUE OpenMP support : OFF Natural language support : ON ScoreP support : OFF System UUID generator : FALSE Extra debug output : OFF Runtime error check level: 2 Signal handling : ON Output coloring : ON Field name tracking : ON Floating point exceptions: OFF Backtrace enabled : ON RAJA enabled : OFF Umpire enabled : OFF Caliper enabled : OFF CUDA enabled : OFF Metric type : 2D Python API support : ON Sanitizers enabled : None === Python === Make sure that the tools/pylib directory is in your PYTHONPATH e.g. by adding to your ~/.bashrc file export PYTHONPATH=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib:/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib:$PYTHONPATH *** Now run `cmake --build /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi` to compile BOUT++ *** -- Configuring done (5.5s) -- Generating done (0.4s) CMake Warning: Manually-specified variables were not used by the project: BOUT_TEST_TIMEOUT CMAKE_CXX_FLAGS_RELEASE CMAKE_C_FLAGS_RELEASE CMAKE_Fortran_FLAGS_RELEASE CMAKE_INSTALL_DO_STRIP INCLUDE_INSTALL_DIR LIB_INSTALL_DIR LIB_SUFFIX SHARE_INSTALL_PREFIX SYSCONF_INSTALL_DIR -- Build files have been written to: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi + /usr/bin/cmake --build build_openmpi -j4 --verbose Change Dir: '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' Run Build Command(s): /usr/bin/cmake -E env VERBOSE=1 /usr/bin/gmake -f Makefile -j4 /usr/bin/cmake -S/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f -B/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/CMakeFiles /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi//CMakeFiles/progress.marks /usr/bin/gmake -f CMakeFiles/Makefile2 all gmake[1]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' /usr/bin/gmake -f externalpackages/PVODE/CMakeFiles/pvpre.dir/build.make externalpackages/PVODE/CMakeFiles/pvpre.dir/depend /usr/bin/gmake -f externalpackages/PVODE/CMakeFiles/pvode.dir/build.make externalpackages/PVODE/CMakeFiles/pvode.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE/CMakeFiles/pvpre.dir/DependInfo.cmake "--color=" gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE/CMakeFiles/pvode.dir/DependInfo.cmake "--color=" /usr/bin/gmake -f CMakeFiles/mofiles.dir/build.make CMakeFiles/mofiles.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/CMakeFiles/mofiles.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' /usr/bin/gmake -f externalpackages/PVODE/CMakeFiles/pvpre.dir/build.make externalpackages/PVODE/CMakeFiles/pvpre.dir/build /usr/bin/gmake -f 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-I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvpre.dir/precon/pvbbdpre.cpp.o -MF CMakeFiles/pvpre.dir/precon/pvbbdpre.cpp.o.d -o CMakeFiles/pvpre.dir/precon/pvbbdpre.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/precon/pvbbdpre.cpp [ 0%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/cvode.cpp.o [ 0%] Generating locale/es/libbout.gmo, _mo_file_es cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE && /usr/lib64/openmpi/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/cvode.cpp.o -MF CMakeFiles/pvode.dir/source/cvode.cpp.o.d -o CMakeFiles/pvode.dir/source/cvode.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/locale/es/ [ 0%] Building CXX object externalpackages/PVODE/CMakeFiles/pvpre.dir/precon/band.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE && /usr/lib64/openmpi/bin/mpicxx -Dpvpre_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvpre.dir/precon/band.cpp.o -MF CMakeFiles/pvpre.dir/precon/band.cpp.o.d -o CMakeFiles/pvpre.dir/precon/band.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/precon/band.cpp cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/msgfmt -o /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/locale/es/libbout.gmo /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/locale/es/libbout.po [ 0%] Generating locale/de/libbout.gmo, _mo_file_de cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/locale/de/ cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/msgfmt -o /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/locale/de/libbout.gmo /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/locale/de/libbout.po [ 2%] Generating locale/fr/libbout.gmo, _mo_file_fr cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/locale/fr/ cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/msgfmt -o /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/locale/fr/libbout.gmo /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/locale/fr/libbout.po [ 2%] Generating locale/zh_CN/libbout.gmo, _mo_file_zh_CN cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/locale/zh_CN/ cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/msgfmt -o /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/locale/zh_CN/libbout.gmo /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/locale/zh_CN/libbout.po [ 2%] Generating locale/zh_TW/libbout.gmo, _mo_file_zh_TW cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/locale/zh_TW/ cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/msgfmt -o /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/locale/zh_TW/libbout.gmo /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/locale/zh_TW/libbout.po [ 2%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/nvector.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE && /usr/lib64/openmpi/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/nvector.cpp.o -MF CMakeFiles/pvode.dir/source/nvector.cpp.o.d -o CMakeFiles/pvode.dir/source/nvector.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [ 2%] Built target mofiles [ 5%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/llnlmath.cpp.o cd 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CMakeFiles/pvode.dir/source/llnlmath.cpp.o.d -o CMakeFiles/pvode.dir/source/llnlmath.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/llnlmath.cpp /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:429: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 429 | #pragma omp parallel for reduction(+: sum) /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:485: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 485 | #pragma omp parallel for reduction(+: sum) /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:543: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 543 | #pragma omp parallel for reduction(+: sum) /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:565: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 565 | #pragma omp parallel for reduction(+: sum) /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:583: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 583 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:698: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 698 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:714: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 714 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:730: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 730 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:745: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 745 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:761: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 761 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:777: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 777 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:793: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 793 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:809: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 809 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:824: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 824 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:831: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 831 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:837: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 837 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:850: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 850 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp: In function ‘void pvode::N_VLinearSum(real, N_Vector, real, N_Vector, N_Vector)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:189:12: warning: unused variable ‘v’ [-Wunused-variable] 189 | N_Vector v, v1, v2; | ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp: In function ‘pvode::real pvode::N_VWL2Norm(N_Vector, N_Vector)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:533:14: warning: variable ‘N_global’ set but not used [-Wunused-but-set-variable] 533 | integer N, N_global; | ^~~~~~~~ [ 8%] Linking CXX shared library ../../lib/libpvpre.so cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE && /usr/bin/cmake -E cmake_link_script CMakeFiles/pvpre.dir/link.txt --verbose=1 [ 8%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/cvspgmr.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE && /usr/lib64/openmpi/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/cvspgmr.cpp.o -MF CMakeFiles/pvode.dir/source/cvspgmr.cpp.o.d -o CMakeFiles/pvode.dir/source/cvspgmr.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvspgmr.cpp In function ‘pvode::CVnlsFunctional(pvode::CVodeMemRec*)’, inlined from ‘pvode::CVnls(pvode::CVodeMemRec*, int)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1826:45, inlined from ‘pvode::CVStep(pvode::CVodeMemRec*)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1358:18, inlined from ‘pvode::CVode(void*, double, pvode::nvec_type*, double*, int)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:882:19: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1876:49: warning: ‘delp’ may be used uninitialized [-Wmaybe-uninitialized] 1876 | if ((m==maxcor) || ((m >= 2) && (del > RDIV * delp))) | ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp: In function ‘pvode::CVode(void*, double, pvode::nvec_type*, double*, int)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1843:13: note: ‘delp’ was declared here 1843 | real del, delp, dcon; | ^~~~ In function ‘pvode::CVNewtonIteration(pvode::CVodeMemRec*)’, inlined from ‘pvode::CVnlsNewton(pvode::CVodeMemRec*, int)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1944:28, inlined from ‘pvode::CVnls(pvode::CVodeMemRec*, int)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1827:41, inlined from ‘pvode::CVStep(pvode::CVodeMemRec*)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1358:18, inlined from ‘pvode::CVode(void*, double, pvode::nvec_type*, double*, int)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:882:19: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:2021:50: warning: ‘delp’ may be used uninitialized [-Wmaybe-uninitialized] 2021 | if ((m == maxcor) || ((m >= 2) && (del > RDIV*delp))) { | ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp: In function ‘pvode::CVode(void*, double, pvode::nvec_type*, double*, int)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1971:13: note: ‘delp’ was declared here 1971 | real del, delp, dcon; | ^~~~ [ 8%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/spgmr.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE && /usr/lib64/openmpi/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/spgmr.cpp.o -MF CMakeFiles/pvode.dir/source/spgmr.cpp.o.d -o CMakeFiles/pvode.dir/source/spgmr.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp: In function ‘int pvode::SpgmrSolve(SpgmrMem, void*, N_Vector, N_Vector, int, int, real, int, void*, N_Vector, N_Vector, ATimesFn, PSolveFn, real*, int*, int*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp:159:8: warning: unused variable ‘s_r0_norm’ [-Wunused-variable] 159 | real s_r0_norm, beta, rotation_product, r_norm, s_product, rho; | ^~~~~~~~~ [ 8%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/iterativ.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE && /usr/lib64/openmpi/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/iterativ.cpp.o -MF CMakeFiles/pvode.dir/source/iterativ.cpp.o.d -o CMakeFiles/pvode.dir/source/iterativ.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/iterativ.cpp /usr/lib64/openmpi/bin/mpicxx -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -Wl,--dependency-file=CMakeFiles/pvpre.dir/link.d -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -shared -Wl,-soname,libpvpre.so.1.0.0 -o ../../lib/libpvpre.so.1.0.0 CMakeFiles/pvpre.dir/precon/pvbbdpre.cpp.o CMakeFiles/pvpre.dir/precon/band.cpp.o -Wl,-rpath,::::::::::::::::::::::::::: cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE && /usr/bin/cmake -E cmake_symlink_library ../../lib/libpvpre.so.1.0.0 ../../lib/libpvpre.so.1.0.0 ../../lib/libpvpre.so gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [ 8%] Built target pvpre [ 11%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/cvdiag.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE && /usr/lib64/openmpi/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/cvdiag.cpp.o -MF CMakeFiles/pvode.dir/source/cvdiag.cpp.o.d -o CMakeFiles/pvode.dir/source/cvdiag.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvdiag.cpp /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp:328:17: warning: ‘krydim’ may be used uninitialized [-Wmaybe-uninitialized] 328 | for (i=1; i <= krydim; i++) yg[i]=ZERO; | ~~^~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp:161:36: note: ‘krydim’ was declared here 161 | int i, j, k, l, l_plus_1, l_max, krydim, ier, ntries; | ^~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp:386:3: warning: ‘rho’ may be used uninitialized [-Wmaybe-uninitialized] 386 | if (rho < beta) { | ^~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp:159:62: note: ‘rho’ was declared here 159 | real s_r0_norm, beta, rotation_product, r_norm, s_product, rho; | ^~~ [ 11%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/smalldense.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE && /usr/lib64/openmpi/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/smalldense.cpp.o -MF CMakeFiles/pvode.dir/source/smalldense.cpp.o.d -o CMakeFiles/pvode.dir/source/smalldense.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/smalldense.cpp /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/smalldense.cpp: In function ‘pvode::integer pvode::gefa(real**, integer, integer*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/smalldense.cpp:82:14: warning: suggest parentheses around assignment used as truth value [-Wparentheses] 82 | if (swap = (l != k)) { | ~~~~~^~~~~~~~~~ [ 11%] Linking CXX shared library ../../lib/libpvode.so cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE && /usr/bin/cmake -E cmake_link_script CMakeFiles/pvode.dir/link.txt --verbose=1 /usr/lib64/openmpi/bin/mpicxx -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -Wl,--dependency-file=CMakeFiles/pvode.dir/link.d -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -shared -Wl,-soname,libpvode.so.1.0.0 -o ../../lib/libpvode.so.1.0.0 CMakeFiles/pvode.dir/source/cvode.cpp.o CMakeFiles/pvode.dir/source/nvector.cpp.o CMakeFiles/pvode.dir/source/llnlmath.cpp.o CMakeFiles/pvode.dir/source/cvspgmr.cpp.o CMakeFiles/pvode.dir/source/spgmr.cpp.o CMakeFiles/pvode.dir/source/iterativ.cpp.o CMakeFiles/pvode.dir/source/cvdiag.cpp.o CMakeFiles/pvode.dir/source/smalldense.cpp.o -Wl,-rpath,::::::::::::::::::::::::::: cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/externalpackages/PVODE && /usr/bin/cmake -E cmake_symlink_library ../../lib/libpvode.so.1.0.0 ../../lib/libpvode.so.1.0.0 ../../lib/libpvode.so gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [ 11%] Built target pvode /usr/bin/gmake -f CMakeFiles/bout++.dir/build.make CMakeFiles/bout++.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [ 14%] Generating bout++-time.cxx /usr/bin/cmake -P /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/cmake/GenerateDateTimeFile.cmake cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/CMakeFiles/bout++.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' /usr/bin/gmake -f CMakeFiles/bout++.dir/build.make CMakeFiles/bout++.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [ 14%] Building CXX object CMakeFiles/bout++.dir/src/bout++.cxx.o [ 14%] Building CXX object CMakeFiles/bout++.dir/src/field/field2d.cxx.o [ 14%] Building CXX object CMakeFiles/bout++.dir/src/field/field.cxx.o [ 17%] Building CXX object CMakeFiles/bout++.dir/src/field/field3d.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 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-fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/field/field.cxx.o -MF CMakeFiles/bout++.dir/src/field/field.cxx.o.d -o CMakeFiles/bout++.dir/src/field/field.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/field.cxx /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard 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-fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/field/field2d.cxx.o -MF CMakeFiles/bout++.dir/src/field/field2d.cxx.o.d -o CMakeFiles/bout++.dir/src/field/field2d.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/field2d.cxx /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/bout++.cxx.o -MF CMakeFiles/bout++.dir/src/bout++.cxx.o.d -o CMakeFiles/bout++.dir/src/bout++.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/field/field3d.cxx.o -MF CMakeFiles/bout++.dir/src/field/field3d.cxx.o.d -o CMakeFiles/bout++.dir/src/field/field3d.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/field3d.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_op.hxx:7, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/field3d.cxx:35: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 17%] Building CXX object CMakeFiles/bout++.dir/src/field/field_data.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/field/field_data.cxx.o -MF CMakeFiles/bout++.dir/src/field/field_data.cxx.o.d -o CMakeFiles/bout++.dir/src/field/field_data.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/field_data.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_op.hxx:7, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/field_data.cxx:2: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 17%] Building CXX object CMakeFiles/bout++.dir/src/field/field_factory.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include 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-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/invert/laplacexy/laplacexy.cxx.o -MF CMakeFiles/bout++.dir/src/invert/laplacexy/laplacexy.cxx.o.d -o CMakeFiles/bout++.dir/src/invert/laplacexy/laplacexy.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/laplacexy/laplacexy.cxx [ 37%] Building CXX object CMakeFiles/bout++.dir/src/invert/laplacexy2/laplacexy2.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra 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-I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/invert/laplacexy2/laplacexy2.cxx.o -MF CMakeFiles/bout++.dir/src/invert/laplacexy2/laplacexy2.cxx.o.d -o CMakeFiles/bout++.dir/src/invert/laplacexy2/laplacexy2.cxx.o -c 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-I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/invert/laplacexy2/laplacexy2_hypre.cxx.o -MF CMakeFiles/bout++.dir/src/invert/laplacexy2/laplacexy2_hypre.cxx.o.d -o CMakeFiles/bout++.dir/src/invert/laplacexy2/laplacexy2_hypre.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/laplacexy2/laplacexy2_hypre.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/laplacexy2/laplacexy2_hypre.cxx:1: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/invert/laplacexy2_hypre.hxx:41:2: warning: #warning LaplaceXY requires Hypre. No LaplaceXY available [-Wcpp] 41 | #warning LaplaceXY requires Hypre. No LaplaceXY available | ^~~~~~~ [ 37%] Building CXX object CMakeFiles/bout++.dir/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include 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-ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/boundary_factory.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/boundary_factory.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/boundary_factory.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_factory.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_op.hxx:7, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_factory.cxx:1: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 42%] Building CXX object CMakeFiles/bout++.dir/src/mesh/boundary_region.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/boundary_region.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/boundary_region.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/boundary_region.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_region.cxx [ 42%] Building CXX object CMakeFiles/bout++.dir/src/mesh/boundary_standard.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/boundary_standard.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/boundary_standard.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/boundary_standard.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx [ 45%] Building CXX object CMakeFiles/bout++.dir/src/mesh/coordinates.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/coordinates.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/coordinates.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/coordinates.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/coordinates.cxx /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx: In function ‘void verifyNumPoints(BoundaryRegion*, int)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:80:21: warning: ‘virtual bool Mesh::firstY() const’ is deprecated: Please use firstY(xind) instead [-Wdeprecated-declarations] 80 | if (mesh->firstY()) { | ~~~~~~~~~~~~^~ In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field_factory.hxx:32, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/boundary_standard.hxx:9, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:1: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/mesh.hxx:447:66: note: declared here 447 | [[deprecated("Please use firstY(xind) instead")]] virtual bool firstY() const = 0; | ^~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:83:20: warning: ‘virtual bool Mesh::lastY() const’ is deprecated: Please use lastY(xind) instead [-Wdeprecated-declarations] 83 | if (mesh->lastY()) { | ~~~~~~~~~~~^~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/mesh.hxx:451:65: note: declared here 451 | [[deprecated("Please use lastY(xind) instead")]] virtual bool lastY() const = 0; | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx: In member function ‘virtual void BoundaryDirichlet::apply(Field3D&, BoutReal)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:473:31: warning: ‘virtual double FieldGenerator::generate(BoutReal, BoutReal, BoutReal, BoutReal)’ is deprecated: This will be removed in a future version. Implementations should override the Context version of this function. [-Wdeprecated-declarations] 473 | val = fg->generate(xnorm, TWOPI * ynorm, TWOPI * (zk - 0.5) / (mesh->LocalNz), | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 474 | t); | ~~ In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field_data.hxx:50, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field.hxx:39, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field2d.hxx:34, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/boundary_op.hxx:9, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/boundary_standard.hxx:6: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sys/expressionparser.hxx:69:3: note: declared here 69 | generate(BoutReal x, BoutReal y, BoutReal z, BoutReal t) { | ^~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:517:33: warning: ‘virtual double FieldGenerator::generate(BoutReal, BoutReal, BoutReal, BoutReal)’ is deprecated: This will be removed in a future version. Implementations should override the Context version of this function. [-Wdeprecated-declarations] 517 | val = fg->generate(xnorm, TWOPI * ynorm, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 518 | TWOPI * (zk - 0.5) / (mesh->LocalNz), t); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sys/expressionparser.hxx:69:3: note: declared here 69 | generate(BoutReal x, BoutReal y, BoutReal z, BoutReal t) { | ^~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx: In member function ‘virtual void BoundaryDirichlet_O3::apply(Field3D&, BoutReal)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:978:31: warning: ‘virtual double FieldGenerator::generate(BoutReal, BoutReal, BoutReal, BoutReal)’ is deprecated: This will be removed in a future version. Implementations should override the Context version of this function. [-Wdeprecated-declarations] 978 | val = fg->generate(xnorm, TWOPI * ynorm, TWOPI * (zk - 0.5) / (mesh->LocalNz), | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 979 | t); | ~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sys/expressionparser.hxx:69:3: note: declared here 69 | generate(BoutReal x, BoutReal y, BoutReal z, BoutReal t) { | ^~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx: In member function ‘virtual void BoundaryDirichlet_O4::apply(Field3D&, BoutReal)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:1444:31: warning: ‘virtual double FieldGenerator::generate(BoutReal, BoutReal, BoutReal, BoutReal)’ is deprecated: This will be removed in a future version. Implementations should override the Context version of this function. [-Wdeprecated-declarations] 1444 | val = fg->generate(xnorm, TWOPI * ynorm, TWOPI * (zk - 0.5) / (mesh->LocalNz), | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1445 | t); | ~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sys/expressionparser.hxx:69:3: note: declared here 69 | generate(BoutReal x, BoutReal y, BoutReal z, BoutReal t) { | ^~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx: In member function ‘virtual void BoundaryNeumann::apply(Field3D&, BoutReal)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:2152:33: warning: ‘virtual double FieldGenerator::generate(BoutReal, BoutReal, BoutReal, BoutReal)’ is deprecated: This will be removed in a future version. Implementations should override the Context version of this function. [-Wdeprecated-declarations] 2152 | val = fg->generate(xnorm, TWOPI * ynorm, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2153 | TWOPI * (zk - 0.5) / (mesh->LocalNz), t); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sys/expressionparser.hxx:69:3: note: declared here 69 | generate(BoutReal x, BoutReal y, BoutReal z, BoutReal t) { | ^~~~~~~~ In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/fci.hxx:31, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/coordinates.cxx:21: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 45%] Building CXX object CMakeFiles/bout++.dir/src/mesh/coordinates_accessor.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/coordinates_accessor.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/coordinates_accessor.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/coordinates_accessor.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/coordinates_accessor.cxx [ 45%] Building CXX object CMakeFiles/bout++.dir/src/mesh/data/gridfromfile.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/data/gridfromfile.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/data/gridfromfile.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/data/gridfromfile.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/data/gridfromfile.cxx [ 45%] Building CXX object CMakeFiles/bout++.dir/src/mesh/data/gridfromoptions.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/data/gridfromoptions.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/data/gridfromoptions.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/data/gridfromoptions.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/data/gridfromoptions.cxx [ 48%] Building CXX object CMakeFiles/bout++.dir/src/mesh/difops.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/difops.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/difops.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/difops.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/difops.cxx [ 48%] Building CXX object CMakeFiles/bout++.dir/src/mesh/fv_ops.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/fv_ops.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/fv_ops.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/fv_ops.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/fv_ops.cxx [ 48%] Building CXX object CMakeFiles/bout++.dir/src/mesh/impls/bout/boutmesh.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/impls/bout/boutmesh.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/impls/bout/boutmesh.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/impls/bout/boutmesh.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:48: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/fv_ops.cxx: In function ‘FV::communicateFluxes(Field3D&)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/fv_ops.cxx:471:15: warning: ‘xout’ may be used uninitialized [-Wmaybe-uninitialized] 471 | mesh->wait(xout); | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/fv_ops.cxx:442:20: note: ‘xout’ was declared here 442 | comm_handle xin, xout; | ^~~~ [ 48%] Building CXX object CMakeFiles/bout++.dir/src/mesh/index_derivs.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/index_derivs.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/index_derivs.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/index_derivs.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/index_derivs.cxx [ 51%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation_xz.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation_xz.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation_xz.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation_xz.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation_xz.cxx In file included from /usr/include/c++/14/bits/shared_ptr.h:53, from /usr/include/c++/14/memory:80, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field.hxx:36, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field2d.hxx:34, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/options.hxx:43, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/deriv_store.hxx:42, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/mesh.hxx:48, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.hxx:8, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:36: In member function ‘std::__shared_ptr, (__gnu_cxx::_Lock_policy)2>::operator bool() const’, inlined from ‘std::operator== >(std::shared_ptr > const&, decltype(nullptr))bool’ at /usr/include/c++/14/bits/shared_ptr.h:561:14, inlined from ‘Array >::empty() const’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/array.hxx:270:44, inlined from ‘Field3D::isAllocated() const’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field3d.hxx:204:48, inlined from ‘BoutMesh::pack_data(std::vector > const&, int, int, int, int, double*)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:2300:7: /usr/include/c++/14/bits/shared_ptr_base.h:1671:16: warning: potential null pointer dereference [-Wnull-dereference] 1671 | { return _M_ptr != nullptr; } | ^~~~~~ In member function ‘std::__shared_ptr, (__gnu_cxx::_Lock_policy)2>::operator bool() const’, inlined from ‘std::operator== >(std::shared_ptr > const&, decltype(nullptr))bool’ at /usr/include/c++/14/bits/shared_ptr.h:561:14, inlined from ‘Array >::empty() const’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/array.hxx:270:44, inlined from ‘Field2D::isAllocated() const’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field2d.hxx:106:48, inlined from ‘BoutMesh::pack_data(std::vector > const&, int, int, int, int, double*)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:2311:7: /usr/include/c++/14/bits/shared_ptr_base.h:1671:16: warning: potential null pointer dereference [-Wnull-dereference] 1671 | { return _M_ptr != nullptr; } | ^~~~~~ [ 51%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation/bilinear_xz.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation/bilinear_xz.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation/bilinear_xz.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation/bilinear_xz.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation/bilinear_xz.cxx [ 51%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_xz.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_xz.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_xz.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_xz.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation/hermite_spline_xz.cxx [ 51%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_z.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_z.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_z.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_z.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation/hermite_spline_z.cxx [ 54%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation/interpolation_z.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation/interpolation_z.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation/interpolation_z.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation/interpolation_z.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation/interpolation_z.cxx [ 54%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation/lagrange_4pt_xz.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation/lagrange_4pt_xz.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation/lagrange_4pt_xz.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation/lagrange_4pt_xz.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation/lagrange_4pt_xz.cxx [ 54%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation/monotonic_hermite_spline_xz.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation/monotonic_hermite_spline_xz.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation/monotonic_hermite_spline_xz.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation/monotonic_hermite_spline_xz.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation/monotonic_hermite_spline_xz.cxx [ 54%] Building CXX object CMakeFiles/bout++.dir/src/mesh/mesh.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/mesh.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/mesh.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/mesh.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/mesh.cxx [ 54%] Building CXX object CMakeFiles/bout++.dir/src/mesh/parallel/fci.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/parallel/fci.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/parallel/fci.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/parallel/fci.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/fci.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/fci.hxx:31, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/fci.cxx:39: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 57%] Building CXX object CMakeFiles/bout++.dir/src/mesh/parallel/identity.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/parallel/identity.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/parallel/identity.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/parallel/identity.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/identity.cxx [ 57%] Building CXX object CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetric.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetric.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetric.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetric.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/shiftedmetric.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/shiftedmetric.cxx:9: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 57%] Building CXX object CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetricinterp.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetricinterp.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetricinterp.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetricinterp.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/shiftedmetricinterp.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/shiftedmetricinterp.cxx:32: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 57%] Building CXX object CMakeFiles/bout++.dir/src/mesh/parallel_boundary_op.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/parallel_boundary_op.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/parallel_boundary_op.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/parallel_boundary_op.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel_boundary_op.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_op.hxx:7, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel_boundary_op.cxx:1: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 60%] Building CXX object CMakeFiles/bout++.dir/src/mesh/parallel_boundary_region.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/parallel_boundary_region.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/parallel_boundary_region.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/parallel_boundary_region.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel_boundary_region.cxx [ 60%] Building CXX object CMakeFiles/bout++.dir/src/mesh/surfaceiter.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/surfaceiter.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/surfaceiter.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/surfaceiter.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/surfaceiter.cxx [ 60%] Building CXX object CMakeFiles/bout++.dir/src/physics/gyro_average.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/physics/gyro_average.cxx.o -MF CMakeFiles/bout++.dir/src/physics/gyro_average.cxx.o.d -o CMakeFiles/bout++.dir/src/physics/gyro_average.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/gyro_average.cxx [ 60%] Building CXX object CMakeFiles/bout++.dir/src/physics/physicsmodel.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/physics/physicsmodel.cxx.o -MF CMakeFiles/bout++.dir/src/physics/physicsmodel.cxx.o.d -o CMakeFiles/bout++.dir/src/physics/physicsmodel.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx [ 62%] Building CXX object CMakeFiles/bout++.dir/src/physics/smoothing.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/physics/smoothing.cxx.o -MF CMakeFiles/bout++.dir/src/physics/smoothing.cxx.o.d -o CMakeFiles/bout++.dir/src/physics/smoothing.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/smoothing.cxx [ 62%] Building CXX object CMakeFiles/bout++.dir/src/physics/snb.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/physics/snb.cxx.o -MF CMakeFiles/bout++.dir/src/physics/snb.cxx.o.d -o CMakeFiles/bout++.dir/src/physics/snb.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/snb.cxx [ 62%] Building CXX object CMakeFiles/bout++.dir/src/physics/sourcex.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g 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-grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/physics/sourcex.cxx.o -MF CMakeFiles/bout++.dir/src/physics/sourcex.cxx.o.d -o CMakeFiles/bout++.dir/src/physics/sourcex.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/sourcex.cxx [ 62%] Building CXX object CMakeFiles/bout++.dir/src/solver/impls/adams_bashforth/adams_bashforth.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/solver/impls/adams_bashforth/adams_bashforth.cxx.o -MF CMakeFiles/bout++.dir/src/solver/impls/adams_bashforth/adams_bashforth.cxx.o.d -o CMakeFiles/bout++.dir/src/solver/impls/adams_bashforth/adams_bashforth.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/adams_bashforth/adams_bashforth.cxx [ 65%] Building CXX object CMakeFiles/bout++.dir/src/solver/impls/arkode/arkode.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/solver/impls/arkode/arkode.cxx.o -MF CMakeFiles/bout++.dir/src/solver/impls/arkode/arkode.cxx.o.d -o CMakeFiles/bout++.dir/src/solver/impls/arkode/arkode.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx [ 65%] Building CXX object CMakeFiles/bout++.dir/src/solver/impls/cvode/cvode.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/solver/impls/cvode/cvode.cxx.o -MF CMakeFiles/bout++.dir/src/solver/impls/cvode/cvode.cxx.o.d -o CMakeFiles/bout++.dir/src/solver/impls/cvode/cvode.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In destructor ‘virtual ArkodeSolver::~ArkodeSolver()’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:154:14: warning: ‘void ARKStepFree(void**)’ is deprecated: use ARKodeFree instead [-Wdeprecated-declarations] 154 | ARKStepFree(&arkode_mem); | ~~~~~~~~~~~^~~~~~~~~~~~~ In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:43: /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:399:6: note: declared here 399 | void ARKStepFree(void** arkode_mem); | ^~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In member function ‘virtual int ArkodeSolver::init()’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:240:25: warning: ‘int ARKStepSetUserData(void*, void*)’ is deprecated: use ARKodeSetUserData instead [-Wdeprecated-declarations] 240 | if (ARKStepSetUserData(arkode_mem, this) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:229:5: note: declared here 229 | int ARKStepSetUserData(void* arkode_mem, void* user_data); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:244:23: warning: ‘int ARKStepSetLinear(void*, int)’ is deprecated: use ARKodeSetLinear instead [-Wdeprecated-declarations] 244 | if (ARKStepSetLinear(arkode_mem, set_linear) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:148:5: note: declared here 148 | int ARKStepSetLinear(void* arkode_mem, int timedepend); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:251:28: warning: ‘int ARKStepSetFixedStep(void*, sunrealtype)’ is deprecated: use ARKodeSetFixedStep instead [-Wdeprecated-declarations] 251 | if (ARKStepSetFixedStep(arkode_mem, fixed_timestep) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:221:5: note: declared here 221 | int ARKStepSetFixedStep(void* arkode_mem, sunrealtype hfixed); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:256:22: warning: ‘int ARKStepSetOrder(void*, int)’ is deprecated: use ARKodeSetOrder instead [-Wdeprecated-declarations] 256 | if (ARKStepSetOrder(arkode_mem, order) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:136:5: note: declared here 136 | int ARKStepSetOrder(void* arkode_mem, int maxord); | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:272:28: warning: ‘int ARKStepSetCFLFraction(void*, sunrealtype)’ is deprecated: use ARKodeSetCFLFraction instead [-Wdeprecated-declarations] 272 | if (ARKStepSetCFLFraction(arkode_mem, cfl_frac) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:158:5: note: declared here 158 | int ARKStepSetCFLFraction(void* arkode_mem, sunrealtype cfl_frac); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:300:32: warning: ‘int ARKStepSetAdaptController(void*, SUNAdaptController)’ is deprecated: use ARKodeSetAdaptController instead [-Wdeprecated-declarations] 300 | if (ARKStepSetAdaptController(arkode_mem, controller) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:154:5: note: declared here 154 | int ARKStepSetAdaptController(void* arkode_mem, SUNAdaptController C); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:304:37: warning: ‘int ARKStepSetAdaptivityAdjustment(void*, int)’ is deprecated: use ARKodeSetAdaptivityAdjustment instead [-Wdeprecated-declarations] 304 | if (ARKStepSetAdaptivityAdjustment(arkode_mem, 0) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:156:5: note: declared here 156 | int ARKStepSetAdaptivityAdjustment(void* arkode_mem, int adjust); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:368:28: warning: ‘int ARKStepSVtolerances(void*, sunrealtype, N_Vector)’ is deprecated: use ARKodeSVtolerances instead [-Wdeprecated-declarations] 368 | if (ARKStepSVtolerances(arkode_mem, reltol, abstolvec) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:115:5: note: declared here 115 | int ARKStepSVtolerances(void* arkode_mem, sunrealtype reltol, N_Vector abstol); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:374:28: warning: ‘int ARKStepSStolerances(void*, sunrealtype, sunrealtype)’ is deprecated: use ARKodeSStolerances instead [-Wdeprecated-declarations] 374 | if (ARKStepSStolerances(arkode_mem, reltol, abstol) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:113:5: note: declared here 113 | int ARKStepSStolerances(void* arkode_mem, sunrealtype reltol, sunrealtype abstol); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:379:28: warning: ‘int ARKStepSetMaxNumSteps(void*, long int)’ is deprecated: use ARKodeSetMaxNumSteps instead [-Wdeprecated-declarations] 379 | if (ARKStepSetMaxNumSteps(arkode_mem, mxsteps) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:205:5: note: declared here 205 | int ARKStepSetMaxNumSteps(void* arkode_mem, long int mxsteps); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:384:26: warning: ‘int ARKStepSetMaxStep(void*, sunrealtype)’ is deprecated: use ARKodeSetMaxStep instead [-Wdeprecated-declarations] 384 | if (ARKStepSetMaxStep(arkode_mem, max_timestep) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:213:5: note: declared here 213 | int ARKStepSetMaxStep(void* arkode_mem, sunrealtype hmax); | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:390:26: warning: ‘int ARKStepSetMinStep(void*, sunrealtype)’ is deprecated: use ARKodeSetMinStep instead [-Wdeprecated-declarations] 390 | if (ARKStepSetMinStep(arkode_mem, min_timestep) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:211:5: note: declared here 211 | int ARKStepSetMinStep(void* arkode_mem, sunrealtype hmin); | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:396:27: warning: ‘int ARKStepSetInitStep(void*, sunrealtype)’ is deprecated: use ARKodeSetInitStep instead [-Wdeprecated-declarations] 396 | if (ARKStepSetInitStep(arkode_mem, start_timestep) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:209:5: note: declared here 209 | int ARKStepSetInitStep(void* arkode_mem, sunrealtype hin); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:408:36: warning: ‘int ARKStepSetNonlinearSolver(void*, SUNNonlinearSolver)’ is deprecated: use ARKodeSetNonlinearSolver instead [-Wdeprecated-declarations] 408 | if (ARKStepSetNonlinearSolver(arkode_mem, nonlinear_solver) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:144:5: note: declared here 144 | int ARKStepSetNonlinearSolver(void* arkode_mem, SUNNonlinearSolver NLS); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:420:33: warning: ‘int ARKStepSetLinearSolver(void*, SUNLinearSolver, SUNMatrix)’ is deprecated: use ARKodeSetLinearSolver instead [-Wdeprecated-declarations] 420 | if (ARKStepSetLinearSolver(arkode_mem, sun_solver, nullptr) != ARKLS_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:125:5: note: declared here 125 | int ARKStepSetLinearSolver(void* arkode_mem, SUNLinearSolver LS, SUNMatrix A); | ^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:429:39: warning: ‘int ARKStepSetPreconditioner(void*, ARKLsPrecSetupFn, ARKLsPrecSolveFn)’ is deprecated: use ARKodeSetPreconditioner instead [-Wdeprecated-declarations] 429 | if (ARKStepSetPreconditioner(arkode_mem, nullptr, arkode_pre) | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:253:5: note: declared here 253 | int ARKStepSetPreconditioner(void* arkode_mem, ARKLsPrecSetupFn psetup, | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:483:29: warning: ‘int ARKStepSetJacTimes(void*, ARKLsJacTimesSetupFn, ARKLsJacTimesVecFn)’ is deprecated: use ARKodeSetJacTimes instead [-Wdeprecated-declarations] 483 | if (ARKStepSetJacTimes(arkode_mem, nullptr, arkode_jac) != ARKLS_SUCCESS) { | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:259:5: note: declared here 259 | int ARKStepSetJacTimes(void* arkode_mem, ARKLsJacTimesSetupFn jtsetup, | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:493:32: warning: ‘int ARKStepSetOptimalParams(void*)’ is deprecated: adjust parameters individually instead [-Wdeprecated-declarations] 493 | if (ARKStepSetOptimalParams(arkode_mem) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:134:5: note: declared here 134 | int ARKStepSetOptimalParams(void* arkode_mem); | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In member function ‘virtual int ArkodeSolver::run()’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:526:23: warning: ‘int ARKStepGetNumSteps(void*, long int*)’ is deprecated: use ARKodeGetNumSteps instead [-Wdeprecated-declarations] 526 | ARKStepGetNumSteps(arkode_mem, &temp_long_int); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:290:5: note: declared here 290 | int ARKStepGetNumSteps(void* arkode_mem, long int* nsteps); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:532:35: warning: ‘int ARKStepGetNumNonlinSolvIters(void*, long int*)’ is deprecated: use ARKodeGetNumNonlinSolvIters instead [-Wdeprecated-declarations] 532 | ARKStepGetNumNonlinSolvIters(arkode_mem, &temp_long_int); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:337:5: note: declared here 337 | int ARKStepGetNumNonlinSolvIters(void* arkode_mem, long int* nniters); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:534:29: warning: ‘int ARKStepGetNumPrecEvals(void*, long int*)’ is deprecated: use ARKodeGetNumPrecEvals instead [-Wdeprecated-declarations] 534 | ARKStepGetNumPrecEvals(arkode_mem, &temp_long_int); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:357:5: note: declared here 357 | int ARKStepGetNumPrecEvals(void* arkode_mem, long int* npevals); | ^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:536:28: warning: ‘int ARKStepGetNumLinIters(void*, long int*)’ is deprecated: use ARKodeGetNumLinIters instead [-Wdeprecated-declarations] 536 | ARKStepGetNumLinIters(arkode_mem, &temp_long_int); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:361:5: note: declared here 361 | int ARKStepGetNumLinIters(void* arkode_mem, long int* nliters); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In member function ‘BoutReal ArkodeSolver::run(BoutReal)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:574:25: warning: ‘int ARKStepEvolve(void*, sunrealtype, N_Vector, sunrealtype*, int)’ is deprecated: use ARKodeEvolve instead [-Wdeprecated-declarations] 574 | flag = ARKStepEvolve(arkode_mem, tout, uvec, &simtime, ARK_NORMAL); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:269:5: note: declared here 269 | int ARKStepEvolve(void* arkode_mem, sunrealtype tout, N_Vector yout, | ^~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:578:26: warning: ‘int ARKStepGetCurrentTime(void*, sunrealtype*)’ is deprecated: use ARKodeGetCurrentTime instead [-Wdeprecated-declarations] 578 | ARKStepGetCurrentTime(arkode_mem, &internal_time); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:298:5: note: declared here 298 | int ARKStepGetCurrentTime(void* arkode_mem, sunrealtype* tcur); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:582:27: warning: ‘int ARKStepEvolve(void*, sunrealtype, N_Vector, sunrealtype*, int)’ is deprecated: use ARKodeEvolve instead [-Wdeprecated-declarations] 582 | flag = ARKStepEvolve(arkode_mem, tout, uvec, &internal_time, ARK_ONE_STEP); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:269:5: note: declared here 269 | int ARKStepEvolve(void* arkode_mem, sunrealtype tout, N_Vector yout, | ^~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:594:25: warning: ‘int ARKStepGetDky(void*, sunrealtype, int, N_Vector)’ is deprecated: use ARKodeGetDky instead [-Wdeprecated-declarations] 594 | flag = ARKStepGetDky(arkode_mem, tout, 0, uvec); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:272:5: note: declared here 272 | int ARKStepGetDky(void* arkode_mem, sunrealtype t, int k, N_Vector dky); | ^~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In member function ‘void ArkodeSolver::rhs_e(BoutReal, BoutReal*, BoutReal*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:624:21: warning: ‘int ARKStepGetLastStep(void*, sunrealtype*)’ is deprecated: use ARKodeGetLastStep instead [-Wdeprecated-declarations] 624 | ARKStepGetLastStep(arkode_mem, &hcur); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:294:5: note: declared here 294 | int ARKStepGetLastStep(void* arkode_mem, sunrealtype* hlast); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In member function ‘void ArkodeSolver::rhs_i(BoutReal, BoutReal*, BoutReal*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:641:21: warning: ‘int ARKStepGetLastStep(void*, sunrealtype*)’ is deprecated: use ARKodeGetLastStep instead [-Wdeprecated-declarations] 641 | ARKStepGetLastStep(arkode_mem, &hcur); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:294:5: note: declared here 294 | int ARKStepGetLastStep(void* arkode_mem, sunrealtype* hlast); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In member function ‘void ArkodeSolver::rhs(BoutReal, BoutReal*, BoutReal*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:654:21: warning: ‘int ARKStepGetLastStep(void*, sunrealtype*)’ is deprecated: use ARKodeGetLastStep instead [-Wdeprecated-declarations] 654 | ARKStepGetLastStep(arkode_mem, &hcur); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/include/openmpi-aarch64/arkode/arkode_arkstep.h:294:5: note: declared here 294 | int ARKStepGetLastStep(void* arkode_mem, sunrealtype* hlast); | ^~~~~~~~~~~~~~~~~~ [ 65%] Building CXX object CMakeFiles/bout++.dir/src/solver/impls/euler/euler.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include 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-I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/solver/impls/ida/ida.cxx.o -MF 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-I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference 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-mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer 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-Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/boutcomm.cxx.o -MF CMakeFiles/bout++.dir/src/sys/boutcomm.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/boutcomm.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx [ 80%] Building CXX object CMakeFiles/bout++.dir/src/sys/boutexception.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security 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-Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/boutexception.cxx.o -MF CMakeFiles/bout++.dir/src/sys/boutexception.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/boutexception.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutexception.cxx [ 80%] Building CXX object CMakeFiles/bout++.dir/src/sys/derivs.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security 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-Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/derivs.cxx.o -MF CMakeFiles/bout++.dir/src/sys/derivs.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/derivs.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/derivs.cxx [ 80%] Building CXX object CMakeFiles/bout++.dir/src/sys/expressionparser.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/expressionparser.cxx.o -MF CMakeFiles/bout++.dir/src/sys/expressionparser.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/expressionparser.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/expressionparser.cxx [ 82%] Building CXX object CMakeFiles/bout++.dir/src/sys/generator_context.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/generator_context.cxx.o -MF CMakeFiles/bout++.dir/src/sys/generator_context.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/generator_context.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/generator_context.cxx /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/expressionparser.cxx: In member function ‘virtual double FieldGenerator::generate(const bout::generator::Context&)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/expressionparser.cxx:43:18: warning: ‘virtual double FieldGenerator::generate(BoutReal, BoutReal, BoutReal, BoutReal)’ is deprecated: This will be removed in a future version. Implementations should override the Context version of this function. [-Wdeprecated-declarations] 43 | return generate(ctx.x(), ctx.y(), ctx.z(), ctx.t()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/expressionparser.cxx:25: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sys/expressionparser.hxx:69:3: note: declared here 69 | generate(BoutReal x, BoutReal y, BoutReal z, BoutReal t) { | ^~~~~~~~ [ 82%] Building CXX object CMakeFiles/bout++.dir/src/sys/hyprelib.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 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-fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/options/options_ini.cxx.o -MF CMakeFiles/bout++.dir/src/sys/options/options_ini.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/options/options_ini.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_ini.cxx [ 85%] Building CXX object CMakeFiles/bout++.dir/src/sys/options/options_io.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/options/options_io.cxx.o -MF CMakeFiles/bout++.dir/src/sys/options/options_io.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/options/options_io.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx [ 85%] Building CXX object CMakeFiles/bout++.dir/src/sys/options/options_netcdf.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard 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-fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/options/options_netcdf.cxx.o -MF CMakeFiles/bout++.dir/src/sys/options/options_netcdf.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/options/options_netcdf.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx [ 85%] Building CXX object CMakeFiles/bout++.dir/src/sys/options/options_adios.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/options/options_adios.cxx.o -MF CMakeFiles/bout++.dir/src/sys/options/options_adios.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/options/options_adios.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_adios.cxx [ 88%] Building CXX object CMakeFiles/bout++.dir/src/sys/optionsreader.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/optionsreader.cxx.o -MF CMakeFiles/bout++.dir/src/sys/optionsreader.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/optionsreader.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/optionsreader.cxx In file included from /usr/include/openmpi-aarch64/ncFile.h:2, from /usr/include/openmpi-aarch64/netcdf:16, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.hxx:22, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:7: /usr/include/openmpi-aarch64/ncGroup.h:18:14: warning: ‘netCDF::file_id’ defined but not used [-Wunused-variable] 18 | static int file_id; | ^~~~~~~ In file included from /usr/include/openmpi-aarch64/ncFile.h:2, from /usr/include/openmpi-aarch64/netcdf:16, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.hxx:22, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:5: /usr/include/openmpi-aarch64/ncGroup.h:18:14: warning: ‘netCDF::file_id’ defined but not used [-Wunused-variable] 18 | static int file_id; | ^~~~~~~ [ 88%] Building CXX object CMakeFiles/bout++.dir/src/sys/output.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/output.cxx.o -MF CMakeFiles/bout++.dir/src/sys/output.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/output.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/output.cxx [ 88%] Building CXX object CMakeFiles/bout++.dir/src/sys/petsclib.cxx.o /usr/lib64/openmpi/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS 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CMakeFiles/bout++.dir/src/mesh/interpolation/interpolation_z.cxx.o CMakeFiles/bout++.dir/src/mesh/interpolation/lagrange_4pt_xz.cxx.o CMakeFiles/bout++.dir/src/mesh/interpolation/monotonic_hermite_spline_xz.cxx.o CMakeFiles/bout++.dir/src/mesh/mesh.cxx.o CMakeFiles/bout++.dir/src/mesh/parallel/fci.cxx.o CMakeFiles/bout++.dir/src/mesh/parallel/identity.cxx.o CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetric.cxx.o CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetricinterp.cxx.o CMakeFiles/bout++.dir/src/mesh/parallel_boundary_op.cxx.o CMakeFiles/bout++.dir/src/mesh/parallel_boundary_region.cxx.o CMakeFiles/bout++.dir/src/mesh/surfaceiter.cxx.o CMakeFiles/bout++.dir/src/physics/gyro_average.cxx.o CMakeFiles/bout++.dir/src/physics/physicsmodel.cxx.o CMakeFiles/bout++.dir/src/physics/smoothing.cxx.o CMakeFiles/bout++.dir/src/physics/snb.cxx.o CMakeFiles/bout++.dir/src/physics/sourcex.cxx.o CMakeFiles/bout++.dir/src/solver/impls/adams_bashforth/adams_bashforth.cxx.o CMakeFiles/bout++.dir/src/solver/impls/arkode/arkode.cxx.o CMakeFiles/bout++.dir/src/solver/impls/cvode/cvode.cxx.o CMakeFiles/bout++.dir/src/solver/impls/euler/euler.cxx.o CMakeFiles/bout++.dir/src/solver/impls/ida/ida.cxx.o "CMakeFiles/bout++.dir/src/solver/impls/imex-bdf2/imex-bdf2.cxx.o" CMakeFiles/bout++.dir/src/solver/impls/petsc/petsc.cxx.o CMakeFiles/bout++.dir/src/solver/impls/power/power.cxx.o CMakeFiles/bout++.dir/src/solver/impls/pvode/pvode.cxx.o "CMakeFiles/bout++.dir/src/solver/impls/rk3-ssp/rk3-ssp.cxx.o" CMakeFiles/bout++.dir/src/solver/impls/rk4/rk4.cxx.o CMakeFiles/bout++.dir/src/solver/impls/rkgeneric/impls/cashkarp/cashkarp.cxx.o CMakeFiles/bout++.dir/src/solver/impls/rkgeneric/impls/rk4simple/rk4simple.cxx.o CMakeFiles/bout++.dir/src/solver/impls/rkgeneric/impls/rkf34/rkf34.cxx.o CMakeFiles/bout++.dir/src/solver/impls/rkgeneric/impls/rkf45/rkf45.cxx.o CMakeFiles/bout++.dir/src/solver/impls/rkgeneric/rkgeneric.cxx.o CMakeFiles/bout++.dir/src/solver/impls/rkgeneric/rkscheme.cxx.o CMakeFiles/bout++.dir/src/solver/impls/slepc/slepc.cxx.o CMakeFiles/bout++.dir/src/solver/impls/snes/snes.cxx.o "CMakeFiles/bout++.dir/src/solver/impls/split-rk/split-rk.cxx.o" CMakeFiles/bout++.dir/src/solver/solver.cxx.o CMakeFiles/bout++.dir/src/sys/adios_object.cxx.o CMakeFiles/bout++.dir/src/sys/bout_types.cxx.o CMakeFiles/bout++.dir/src/sys/boutcomm.cxx.o CMakeFiles/bout++.dir/src/sys/boutexception.cxx.o CMakeFiles/bout++.dir/src/sys/derivs.cxx.o CMakeFiles/bout++.dir/src/sys/expressionparser.cxx.o CMakeFiles/bout++.dir/src/sys/generator_context.cxx.o CMakeFiles/bout++.dir/src/sys/hyprelib.cxx.o CMakeFiles/bout++.dir/src/sys/msg_stack.cxx.o CMakeFiles/bout++.dir/src/sys/options.cxx.o CMakeFiles/bout++.dir/src/sys/options/options_ini.cxx.o CMakeFiles/bout++.dir/src/sys/options/options_io.cxx.o CMakeFiles/bout++.dir/src/sys/options/options_netcdf.cxx.o CMakeFiles/bout++.dir/src/sys/options/options_adios.cxx.o CMakeFiles/bout++.dir/src/sys/optionsreader.cxx.o CMakeFiles/bout++.dir/src/sys/output.cxx.o CMakeFiles/bout++.dir/src/sys/petsclib.cxx.o CMakeFiles/bout++.dir/src/sys/range.cxx.o CMakeFiles/bout++.dir/src/sys/slepclib.cxx.o CMakeFiles/bout++.dir/src/sys/timer.cxx.o CMakeFiles/bout++.dir/src/sys/type_name.cxx.o CMakeFiles/bout++.dir/src/sys/utils.cxx.o "CMakeFiles/bout++.dir/bout++-time.cxx.o" -Wl,-rpath,/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/lib: /usr/lib64/openmpi/lib/libpetsc.so /usr/lib64/libfmt.so.11.0.2 lib/libpvode.so.1.0.0 lib/libpvpre.so.1.0.0 /usr/lib64/libnetcdf_c++4.so /usr/lib64/libfftw3.so /usr/lib64/libflexiblas.so -lm -ldl -ldl /usr/lib64/openmpi/lib/libpetsc.so /usr/lib64/openmpi/lib/libhdf5.so /usr/lib64/libnetcdf.so /usr/lib64/openmpi/lib/libsundials_nvecparallel.so.7.1.1 /usr/lib64/openmpi/lib/libsundials_cvode.so.7.1.1 /usr/lib64/openmpi/lib/lIn member function ‘__ct ’, inlined from ‘_Construct’ at /usr/include/c++/14/bits/stl_construct.h:119:7, inlined from ‘construct’ at /usr/include/c++/14/bits/alloc_traits.h:694:19, inlined from ‘__ct ’ at /usr/include/c++/14/bits/shared_ptr_base.h:607:39, inlined from ‘__ct ’ at /usr/include/c++/14/bits/shared_ptr_base.h:969:16, inlined from ‘__ct ’ at /usr/include/c++/14/bits/shared_ptr_base.h:1713:14, inlined from ‘__ct ’ at /usr/include/c++/14/bits/shared_ptr.h:463:59, inlined from ‘make_shared’ at /usr/include/c++/14/bits/shared_ptr.h:1008:39, inlined from ‘get’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/array.hxx:428:38, inlined from ‘reallocate’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/array.hxx:226:14, inlined from ‘__ct_base ’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/laplace/impls/spt/spt.cxx:68:21: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/array.hxx:75:12: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 75 | data = new T[len]; | ^ /usr/include/c++/14/new: In member function ‘__ct_base ’: /usr/include/c++/14/new:133:26: note: in a call to allocation function ‘operator new []’ declared here 133 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ ibsundials_ida.so.7.1.1 /usr/lib64/openmpi/lib/libsundials_arkode.so.6.1.1 /usr/lib64/openmpi/lib/libsundials_core.so.7.1.1 /usr/bin/cmake -E cmake_symlink_library lib/libbout++.so.5.1.0 lib/libbout++.so.5.1.0 lib/libbout++.so gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [ 94%] Built target bout++ /usr/bin/gmake -f tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/build.make tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [ 97%] Generating boutcpp.pxd [ 94%] Generating resolve_enum.pxd [ 94%] Generating helper.cxx [ 97%] Generating boutpp.pyx cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E env PYTHONPATH=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/..: /usr/bin/python3.13 generate.py boutcpp.pxd.jinja /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/boutcpp.pxd cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E env PYTHONPATH=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/..: /usr/bin/python3.13 generate.py boutpp.pyx.jinja /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/boutpp.pyx cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E env PYTHONPATH=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/..: /usr/bin/python3.13 generate.py resolve_enum.pxd.jinja /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/resolve_enum.pxd cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E env PYTHONPATH=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/..: /usr/bin/python3.13 generate.py helper.cxx.jinja /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.cxx [ 97%] Generating helper.h cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E env PYTHONPATH=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/..: /usr/bin/python3.13 generate.py helper.h.jinja /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h [ 97%] Generating libboutpp.cpp cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build && /usr/bin/cmake -E copy boutpp.pyx libboutpp.pyx cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build && /usr/bin/python3.13 -m cython libboutpp.pyx --cplus -3 -X binding=True -X embedsignature=True warning: resolve_enum.pxd:49:21: 'deflt' redeclared warning: resolve_enum.pxd:189:24: 'Standard' redeclared warning: resolve_enum.pxd:223:15: 'Standard' redeclared performance hint: libboutpp.pyx:2065:5: Exception check on 'callback' will always require the GIL to be acquired. Possible solutions: 1. Declare 'callback' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions. 2. Use an 'int' return type on 'callback' to allow an error code to be returned. cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' /usr/bin/gmake -f tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/build.make tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [ 97%] Building CXX object tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/helper.cxx.o [100%] Building CXX object tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/libboutpp.cpp.o [100%] Building CXX object tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/boutexception_helper.cxx.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build && /usr/lib64/openmpi/bin/mpicxx -DCHECK=2 -DFMT_SHARED -Dboutpp_cpython_313_aarch64_linux_gnu_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build -I/usr/include/python3.13 -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/boutexception_helper.cxx.o -MF CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/boutexception_helper.cxx.o.d -o CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/boutexception_helper.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/boutexception_helper.cxx cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build && /usr/lib64/openmpi/bin/mpicxx -DCHECK=2 -DFMT_SHARED -Dboutpp_cpython_313_aarch64_linux_gnu_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build -I/usr/include/python3.13 -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/libboutpp.cpp.o -MF CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/libboutpp.cpp.o.d -o CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/libboutpp.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build && /usr/lib64/openmpi/bin/mpicxx -DCHECK=2 -DFMT_SHARED -Dboutpp_cpython_313_aarch64_linux_gnu_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build -I/usr/include/python3.13 -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/openmpi-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/helper.cxx.o -MF CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/helper.cxx.o.d -o CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/helper.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.cxx In file included from /usr/include/numpy/ndarraytypes.h:1929, from /usr/include/numpy/ndarrayobject.h:12, from /usr/include/numpy/arrayobject.h:5, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:1268: /usr/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:40864:46: warning: ‘__pyx_obj_9libboutpp_Vector2D* __pyx_f_9libboutpp_v2dFromObj(Vector2D)’ defined but not used [-Wunused-function] 40864 | static struct __pyx_obj_9libboutpp_Vector2D *__pyx_f_9libboutpp_v2dFromObj(Vector2D __pyx_v_i) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp: In function ‘__pyx_f_12resolve_enum_resolve_cell_loc(_object*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:9290:10: warning: ‘__pyx_r’ may be used uninitialized [-Wmaybe-uninitialized] 9290 | return __pyx_r; | ^~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:8933:12: note: ‘__pyx_r’ was declared here 8933 | CELL_LOC __pyx_r; | ^~~~~~~ In function ‘__pyx_pf_9libboutpp_54bracket(_object*, __pyx_obj_9libboutpp_Field3D*, __pyx_obj_9libboutpp_Field3D*, _object*, _object*)’, inlined from ‘__pyx_pw_9libboutpp_55bracket(_object*, _object* const*, long, _object*)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:64913:42: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:65007:65: warning: ‘__pyx_r’ may be used uninitialized [-Wmaybe-uninitialized] 65007 | __pyx_t_1 = ((PyObject *)__pyx_f_9libboutpp_f3dFromObj(bracket((__pyx_v_a->cobj[0]), (__pyx_v_b->cobj[0]), __pyx_v_method_, __pyx_v_outloc_))); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 2990, __pyx_L1_error) | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp: In function ‘__pyx_pw_9libboutpp_55bracket(_object*, _object* const*, long, _object*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:10801:18: note: ‘__pyx_r’ was declared here 10801 | BRACKET_METHOD __pyx_r; | ^~~~~~~ [100%] Linking CXX shared library libboutpp.cpython-313-aarch64-linux-gnu.so cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build && /usr/bin/cmake -E cmake_link_script CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/link.txt --verbose=1 /usr/lib64/openmpi/bin/mpicxx -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -Wl,--dependency-file=CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/link.d -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -shared -Wl,-soname,libboutpp.cpython-313-aarch64-linux-gnu.so -o libboutpp.cpython-313-aarch64-linux-gnu.so "CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/libboutpp.cpp.o" "CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/helper.cxx.o" "CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/boutexception_helper.cxx.o" -Wl,-rpath,/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/lib: ../../../lib/libbout++.so.5.1.0 /usr/lib64/openmpi/lib/libpetsc.so /usr/lib64/openmpi/lib/libpetsc.so /usr/lib64/openmpi/lib/libhdf5.so /usr/lib64/libfmt.so.11.0.2 ../../../lib/libpvode.so.1.0.0 ../../../lib/libpvpre.so.1.0.0 /usr/lib64/libnetcdf_c++4.so /usr/lib64/libnetcdf.so /usr/lib64/libfftw3.so /usr/lib64/libflexiblas.so -lm -ldl /usr/lib64/openmpi/lib/libsundials_nvecparallel.so.7.1.1 /usr/lib64/openmpi/lib/libsundials_cvode.so.7.1.1 /usr/lib64/openmpi/lib/libsundials_ida.so.7.1.1 /usr/lib64/openmpi/lib/libsundials_arkode.so.6.1.1 /usr/lib64/openmpi/lib/libsundials_core.so.7.1.1 -ldl gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [100%] Built target boutpp.cpython-313-aarch64-linux-gnu /usr/bin/gmake -f tools/pylib/_boutpp_build/CMakeFiles/boutpp.dir/build.make tools/pylib/_boutpp_build/CMakeFiles/boutpp.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/CMakeFiles/boutpp.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' /usr/bin/gmake -f tools/pylib/_boutpp_build/CMakeFiles/boutpp.dir/build.make tools/pylib/_boutpp_build/CMakeFiles/boutpp.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [100%] Building python interface cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build && /usr/bin/cmake -E copy /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpython-313-aarch64-linux-gnu.so /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/../boutpp/libboutpp.cpython-313-aarch64-linux-gnu.so cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build && /usr/bin/cmake -E copy /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build/boutpp.py /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/../boutpp/__init__.py gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [100%] Built target boutpp gmake[1]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/CMakeFiles 0 + PYPA= + LDPA=/usr/lib64/openmpi/lib ++ pwd + export PYTHONPATH=:/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/ + PYTHONPATH=:/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/ ++ pwd + export LD_LIBRARY_PATH=/usr/lib64/openmpi/lib:/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/lib/ + LD_LIBRARY_PATH=/usr/lib64/openmpi/lib:/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/lib/ + /usr/bin/cmake --build build_openmpi/manual -j4 --verbose Change Dir: '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/manual' Run Build Command(s): /usr/bin/cmake -E env VERBOSE=1 /usr/bin/gmake -f Makefile -j4 cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi && /usr/bin/cmake -S/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f -B/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi --check-build-system CMakeFiles/Makefile.cmake 0 cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi && /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/CMakeFiles /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/manual//CMakeFiles/progress.marks cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi && /usr/bin/gmake -f CMakeFiles/Makefile2 manual/all gmake[1]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' /usr/bin/gmake -f manual/CMakeFiles/sphinx-html.dir/build.make manual/CMakeFiles/sphinx-html.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/manual /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/manual/CMakeFiles/sphinx-html.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' /usr/bin/gmake -f manual/CMakeFiles/sphinx-html.dir/build.make manual/CMakeFiles/sphinx-html.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [100%] Generating HTML documentation with Sphinx in /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/manual/docs cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/manual && /usr/bin/sphinx-build -b html /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/manual/docs Running Sphinx v7.3.7 breathe module not installed recommonmark module not installed making output directory... done building [mo]: targets for 0 po files that are out of date writing output... building [html]: targets for 47 source files that are out of date updating environment: [new config] 47 added, 0 changed, 0 removed reading sources... [ 2%] _apidoc/boutdata reading sources... [ 4%] _apidoc/boutpp reading sources... [ 6%] _apidoc/boututils No mlab available reading sources... [ 9%] _apidoc/zoidberg reading sources... [ 11%] api_reference reading sources... [ 13%] developer_docs/code_layout reading sources... [ 15%] developer_docs/contributing reading sources... [ 17%] developer_docs/data_types reading sources... [ 19%] developer_docs/file_io reading sources... [ 21%] developer_docs/git_basics reading sources... [ 23%] developer_docs/mesh reading sources... [ 26%] developer_docs/natural_language reading sources... [ 28%] developer_docs/performance_profiling reading sources... [ 30%] developer_docs/petsc_interface reading sources... [ 32%] index reading sources... [ 34%] user_docs/BOUT_Gradperp_op reading sources... [ 36%] user_docs/adios2 reading sources... [ 38%] user_docs/advanced_install reading sources... [ 40%] user_docs/algebraic_operators reading sources... [ 43%] user_docs/boundary_options reading sources... [ 45%] user_docs/bout_functions_for_physics reading sources... [ 47%] user_docs/bout_options reading sources... [ 49%] user_docs/coordinates reading sources... [ 51%] user_docs/differential_operators reading sources... [ 53%] user_docs/eigenvalue_solver reading sources... [ 55%] user_docs/gpu_support reading sources... [ 57%] user_docs/input_grids reading sources... [ 60%] user_docs/installing reading sources... [ 62%] user_docs/introduction reading sources... [ 64%] user_docs/invertable_operator reading sources... [ 66%] user_docs/laplacian reading sources... [ 68%] user_docs/makefiles reading sources... [ 70%] user_docs/new_in_v5 reading sources... [ 72%] user_docs/nonlocal reading sources... [ 74%] user_docs/output_and_post reading sources... [ 77%] user_docs/parallel-transforms reading sources... [ 79%] user_docs/petsc reading sources... [ 81%] user_docs/physics_models reading sources... [ 83%] user_docs/preconditioning reading sources... [ 85%] user_docs/python reading sources... [ 87%] user_docs/python_boutpp reading sources... [ 89%] user_docs/quickstart reading sources... [ 91%] user_docs/running_bout reading sources... [ 94%] user_docs/staggered_grids reading sources... [ 96%] user_docs/testing reading sources... [ 98%] user_docs/time_integration reading sources... [100%] user_docs/variable_init /usr/lib/python3.13/site-packages/boutdata/collect.py:docstring of boutdata.collect:1: WARNING: duplicate object description of boutdata.collect, other instance in _apidoc/boutdata, use :no-index: for one of them WARNING: autodoc: failed to import module 'mayavi2' from module 'boutdata'; the following exception was raised: No module named 'enthought' /usr/lib/python3.13/site-packages/boutdata/restart.py:docstring of boutdata.restart.shift_v3_to_v4:5: ERROR: Unexpected indentation. /usr/lib/python3.13/site-packages/boutdata/restart.py:docstring of boutdata.restart.shift_v3_to_v4:6: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/lib/python3.13/site-packages/boutdata/restart.py:docstring of boutdata.restart.normal:56: WARNING: Footnote [1] is not referenced. docstring of libboutpp.PhysicsModel:14: ERROR: Unexpected indentation. /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/boutpp/__init__.py:docstring of libboutpp.create3D:3: ERROR: Unexpected indentation. WARNING: autodoc: failed to import module 'analyse_equil_2' from module 'boututils'; the following exception was raised: No module named 'crosslines' WARNING: autodoc: failed to import module 'anim' from module 'boututils'; the following exception was raised: No module named 'tvtk' WARNING: autodoc: failed to import module 'boutgrid' from module 'boututils'; the following exception was raised: No module named 'tvtk' /usr/lib/python3.13/site-packages/boututils/calculus.py:docstring of boututils.calculus.deriv2D:14: ERROR: Unexpected indentation. WARNING: autodoc: failed to import module 'crosslines' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'efit_analyzer' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'fft_deriv' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'int_func' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'mode_structure' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'moment_xyzt' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'radial_grid' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'spectrogram' from module 'boututils'; the following exception was raised: cannot import name 'pi' from 'scipy' (/usr/lib64/python3.13/site-packages/scipy/__init__.py) WARNING: autodoc: failed to import module 'surface_average' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'volume_integral' from module 'boututils'; the following exception was raised: No module named 'past' /usr/lib/python3.13/site-packages/zoidberg/field.py:docstring of zoidberg.field.DommaschkPotentials:3: ERROR: Unexpected indentation. /usr/lib/python3.13/site-packages/zoidberg/field.py:docstring of zoidberg.field.MagneticField.attributes:1: WARNING: duplicate object description of zoidberg.field.MagneticField.attributes, other instance in _apidoc/zoidberg, use :no-index: for one of them /usr/lib/python3.13/site-packages/zoidberg/field.py:docstring of zoidberg.field.MagneticField.boundary:1: WARNING: duplicate object description of zoidberg.field.MagneticField.boundary, other instance in _apidoc/zoidberg, use :no-index: for one of them /usr/lib/python3.13/site-packages/zoidberg/field.py:docstring of zoidberg.field.RotatingEllipse:3: ERROR: Unexpected indentation. /usr/lib/python3.13/site-packages/zoidberg/field.py:docstring of zoidberg.field.RotatingEllipse.coil:3: ERROR: Unexpected indentation. /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/api_reference.rst:4: WARNING: toctree glob pattern '_breathe_autogen/*' didn't match any documents /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/file_io.rst:114: ERROR: Unknown interpreted text role "py". /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/performance_profiling.rst:85: WARNING: Inline literal start-string without end-string. /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/boundary_options.rst:120: WARNING: Footnote [#] is not referenced. /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/installing.rst:400: WARNING: Title underline too short. Working with an active ``conda`` environment ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/installing.rst:400: WARNING: Title underline too short. Working with an active ``conda`` environment ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/installing.rst:406: ERROR: Unexpected indentation. /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/installing.rst:407: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/lib/python3.13/site-packages/boututils/__init__.py:docstring of boututils:1: WARNING: duplicate object description of boututils, other instance in _apidoc/boututils, use :no-index: for one of them /usr/lib/python3.13/site-packages/boutdata/__init__.py:docstring of boutdata:1: WARNING: duplicate object description of boutdata, other instance in _apidoc/boutdata, use :no-index: for one of them /usr/lib/python3.13/site-packages/boutdata/__init__.py:docstring of boutdata.collect.attributes:1: WARNING: duplicate object description of boutdata.attributes, other instance in _apidoc/boutdata, use :no-index: for one of them looking for now-outdated files... /usr/lib/python3.13/site-packages/boutdata/__init__.py:docstring of boutdata.collect.collect:1: WARNING: duplicate object description of boutdata.collect, other instance in _apidoc/boutdata, use :no-index: for one of them /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/running_bout.rst:462: WARNING: Literal block expected; none found. none found pickling environment... done checking consistency... done preparing documents... WARNING: unsupported theme option 'repository_url' given WARNING: unsupported theme option 'repository_branch' given WARNING: unsupported theme option 'path_to_docs' given WARNING: unsupported theme option 'use_edit_page_button' given WARNING: unsupported theme option 'use_repository_button' given WARNING: unsupported theme option 'use_issues_button' given WARNING: unsupported theme option 'home_page_in_toc' given done copying assets... copying static files... done copying extra files... done done writing output... [ 2%] _apidoc/boutdata writing output... [ 4%] _apidoc/boutpp writing output... [ 6%] _apidoc/boututils writing output... [ 9%] _apidoc/zoidberg writing output... [ 11%] api_reference writing output... [ 13%] developer_docs/code_layout writing output... [ 15%] developer_docs/contributing writing output... [ 17%] developer_docs/data_types writing output... [ 19%] developer_docs/file_io writing output... [ 21%] developer_docs/git_basics writing output... [ 23%] developer_docs/mesh writing output... [ 26%] developer_docs/natural_language writing output... [ 28%] developer_docs/performance_profiling writing output... [ 30%] developer_docs/petsc_interface writing output... [ 32%] index writing output... [ 34%] user_docs/BOUT_Gradperp_op writing output... [ 36%] user_docs/adios2 writing output... [ 38%] user_docs/advanced_install writing output... [ 40%] user_docs/algebraic_operators writing output... [ 43%] user_docs/boundary_options writing output... [ 45%] user_docs/bout_functions_for_physics writing output... [ 47%] user_docs/bout_options writing output... [ 49%] user_docs/coordinates writing output... [ 51%] user_docs/differential_operators writing output... [ 53%] user_docs/eigenvalue_solver writing output... [ 55%] user_docs/gpu_support writing output... [ 57%] user_docs/input_grids writing output... [ 60%] user_docs/installing writing output... [ 62%] user_docs/introduction writing output... [ 64%] user_docs/invertable_operator writing output... [ 66%] user_docs/laplacian writing output... [ 68%] user_docs/makefiles writing output... [ 70%] user_docs/new_in_v5 writing output... [ 72%] user_docs/nonlocal writing output... [ 74%] user_docs/output_and_post writing output... [ 77%] user_docs/parallel-transforms writing output... [ 79%] user_docs/petsc writing output... [ 81%] user_docs/physics_models writing output... [ 83%] user_docs/preconditioning writing output... [ 85%] user_docs/python writing output... [ 87%] user_docs/python_boutpp writing output... [ 89%] user_docs/quickstart writing output... [ 91%] user_docs/running_bout writing output... [ 94%] user_docs/staggered_grids writing output... [ 96%] user_docs/testing writing output... [ 98%] user_docs/time_integration writing output... [100%] user_docs/variable_init /usr/lib/python3.13/site-packages/boutdata/restart.py:docstring of boutdata.restart.normal:14: WARNING: Unparseable C++ cross-reference: 'numpy.random.Generator.normal' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 5] numpy.random.Generator.normal -----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 5] numpy.random.Generator.normal -----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 5] numpy.random.Generator.normal -----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 5] numpy.random.Generator.normal -----^ /usr/lib/python3.13/site-packages/boutdata/restart.py:docstring of boutdata.restart.normal:14: WARNING: Unparseable C++ cross-reference: 'numpy.random.Generator' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 5] numpy.random.Generator -----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 5] numpy.random.Generator -----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 5] numpy.random.Generator -----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 5] numpy.random.Generator -----^ /usr/lib/python3.13/site-packages/boutdata/restart.py:docstring of boutdata.restart.normal:14: WARNING: undefined label: 'random-quick-start' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:81: WARNING: unknown document: '../_breathe_autogen/file/bout_09_09_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:87: WARNING: unknown document: '../_breathe_autogen/file/field2d_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:93: WARNING: unknown document: '../_breathe_autogen/file/field3d_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:100: WARNING: unknown document: '../_breathe_autogen/file/field__data_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:105: WARNING: unknown document: '../_breathe_autogen/file/fieldperp_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:112: WARNING: unknown document: '../_breathe_autogen/file/initialprofiles_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:117: WARNING: unknown document: '../_breathe_autogen/file/vecops_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:117: WARNING: unknown document: '../_breathe_autogen/file/difops_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:124: WARNING: unknown document: '../_breathe_autogen/file/vector2d_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:129: WARNING: unknown document: '../_breathe_autogen/file/vector3d_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:133: WARNING: unknown document: '../_breathe_autogen/file/where_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:139: WARNING: unknown document: '../_breathe_autogen/file/fft__fftw_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:139: WARNING: unknown document: '../_breathe_autogen/file/fft_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:146: WARNING: unknown document: '../_breathe_autogen/file/invert__laplace_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:154: WARNING: unknown document: '../_breathe_autogen/file/serial__tri_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:156: WARNING: unknown document: '../_breathe_autogen/file/serial__tri_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:160: WARNING: unknown document: '../_breathe_autogen/file/serial__band_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:162: WARNING: unknown document: '../_breathe_autogen/file/serial__band_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:166: WARNING: unknown document: '../_breathe_autogen/file/spt_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:168: WARNING: unknown document: '../_breathe_autogen/file/spt_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:173: WARNING: unknown document: '../_breathe_autogen/file/invert__parderiv_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:181: WARNING: unknown document: '../_breathe_autogen/file/cyclic_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:183: WARNING: unknown document: '../_breathe_autogen/file/cyclic_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:185: WARNING: unknown document: '../_breathe_autogen/file/lapack__routines_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:191: WARNING: unknown document: '../_breathe_autogen/file/boundary__factory_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:195: WARNING: unknown document: '../_breathe_autogen/file/boundary__region_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:200: WARNING: unknown document: '../_breathe_autogen/file/boundary__standard_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:204: WARNING: unknown document: '../_breathe_autogen/file/difops_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:204: WARNING: unknown document: '../_breathe_autogen/file/derivs_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:209: WARNING: unknown document: '../_breathe_autogen/file/interpolation_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:212: WARNING: unknown document: '../_breathe_autogen/file/mesh_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:220: WARNING: unknown document: '../_breathe_autogen/file/boutmesh_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:224: WARNING: unknown document: '../_breathe_autogen/file/boutmesh_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:228: WARNING: unknown document: '../_breathe_autogen/file/gyro__average_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:231: WARNING: unknown document: '../_breathe_autogen/file/smoothing_8cxx' generating indices... /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:234: WARNING: unknown document: '../_breathe_autogen/file/sourcex_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:240: WARNING: unknown document: '../_breathe_autogen/file/solver_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:247: WARNING: unknown document: '../_breathe_autogen/file/cvode_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:251: WARNING: unknown document: '../_breathe_autogen/file/cvode_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:255: WARNING: unknown document: '../_breathe_autogen/file/ida_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:259: WARNING: unknown document: '../_breathe_autogen/file/ida_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:263: WARNING: unknown document: '../_breathe_autogen/file/petsc_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:266: WARNING: unknown document: '../_breathe_autogen/file/petsc_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:270: WARNING: unknown document: '../_breathe_autogen/file/pvode_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:274: WARNING: unknown document: '../_breathe_autogen/file/pvode_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:278: WARNING: unknown document: '../_breathe_autogen/file/boutcomm_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:280: WARNING: unknown document: '../_breathe_autogen/file/boutexception_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:283: WARNING: unknown document: '../_breathe_autogen/file/derivs_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:283: WARNING: unknown document: '../_breathe_autogen/file/difops_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:289: WARNING: unknown document: '../_breathe_autogen/file/msg__stack_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:296: WARNING: unknown document: '../_breathe_autogen/file/options_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:300: WARNING: unknown document: '../_breathe_autogen/file/optionsreader_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:302: WARNING: unknown document: '../_breathe_autogen/file/output_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:304: WARNING: unknown document: '../_breathe_autogen/file/range_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:308: WARNING: unknown document: '../_breathe_autogen/file/timer_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:312: WARNING: unknown document: '../_breathe_autogen/file/utils_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:318: WARNING: unknown document: '../_breathe_autogen/file/optionparser_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:320: WARNING: unknown document: '../_breathe_autogen/file/options__ini_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:322: WARNING: unknown document: '../_breathe_autogen/file/options__ini_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/mesh.rst:31: WARNING: unknown document: '../_breathe_autogen/file/bout_09_09_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/algebraic_operators.rst:8: WARNING: unknown document: '../_breathe_autogen/file/field2d_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/algebraic_operators.rst:8: WARNING: unknown document: '../_breathe_autogen/file/field3d_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/algebraic_operators.rst:8: WARNING: unknown document: '../_breathe_autogen/file/fieldperp_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:139: WARNING: Unparseable C++ cross-reference: '&' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] & ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] & ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] & ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:139: WARNING: Unparseable C++ cross-reference: '|' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] | ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] | ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] | ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:139: WARNING: Unparseable C++ cross-reference: 'false' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:139: WARNING: Unparseable C++ cross-reference: 'true' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:153: WARNING: Unparseable C++ cross-reference: '>' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] > ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] > ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] > ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:153: WARNING: Unparseable C++ cross-reference: '<' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] < ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] < ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] < ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:163: WARNING: Unparseable C++ cross-reference: 'true' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:163: WARNING: Unparseable C++ cross-reference: 'false' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:168: WARNING: Unparseable C++ cross-reference: 'true' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:168: WARNING: Unparseable C++ cross-reference: 'false' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:168: WARNING: Unparseable C++ cross-reference: '&' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] & ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] & ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] & ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:168: WARNING: Unparseable C++ cross-reference: '|' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] | ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] | ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] | ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/differential_operators.rst:530: WARNING: unknown document: '../_breathe_autogen/file/fv__ops_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/differential_operators.rst:538: WARNING: unknown document: '../_breathe_autogen/file/fv__ops_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/laplacian.rst:185: WARNING: unknown document: '../_breathe_autogen/file/invert__laplace_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/output_and_post.rst:580: WARNING: Lexing literal_block 'AppendTo[$Path,"/full/path/to/BOUT/tools/mathematicalib"]' as "mathematica" resulted in an error at token: '$'. Retrying in relaxed mode. /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/physics_models.rst:31: WARNING: undefined label: 'sec-cmake' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/time_integration.rst:1030: WARNING: unknown document: '../_breathe_autogen/file/bout_09_09_8cxx' genindex py-modindex done writing additional pages... search done copying images... [ 4%] figs/layout1.png copying images... [ 8%] figs/layout2.png copying images... [ 12%] figs/memory.png copying images... [ 15%] figs/petsc_interface_overview.png copying images... [ 19%] figs/operator_stencil_uml.png copying images... [ 23%] figs/petsc_vector_set.png copying images... [ 27%] figs/fluid_norm_mc.png copying images... [ 31%] figs/diffStencils.png copying images... [ 35%] figs/topology_cross_section.svg copying images... [ 38%] figs/topology_schematic.svg copying images... 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The HTML pages are in docs. cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/manual && /usr/bin/cmake -E echo Generated\ HTML\ docs\ in\ file:///builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/manual/docs/index.html Generated HTML docs in file:///builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/manual/docs/index.html gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [100%] Built target sphinx-html /usr/bin/gmake -f manual/CMakeFiles/docs.dir/build.make manual/CMakeFiles/docs.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/manual /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/manual/CMakeFiles/docs.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' /usr/bin/gmake -f manual/CMakeFiles/docs.dir/build.make manual/CMakeFiles/docs.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' gmake[2]: Nothing to be done for 'manual/CMakeFiles/docs.dir/build'. gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' [100%] Built target docs gmake[1]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi' /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/CMakeFiles 0 + export LD_LIBRARY_PATH=/usr/lib64/openmpi/lib + LD_LIBRARY_PATH=/usr/lib64/openmpi/lib + export PYTHONPATH= + PYTHONPATH= + '[' openmpi = mpich ']' + '[' openmpi = openmpi ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ '[' sh = sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo x +++ '[' -n x ']' ++++ eval 'echo ${LD_LIBRARY_PATH}' +++++ echo /usr/lib64/openmpi/lib +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' ' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD ']' +++ '[' LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n '__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval __MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' __MODULES_QUARANTINE_SET=1 ' ++++ eval '__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' __MODULES_QUARANTINE_SET=1 /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ __MODULES_QUAR_LD_LIBRARY_PATH=/usr/lib64/openmpi/lib +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ __MODULES_QUARANTINE_SET=1 +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval '_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ unset __MODULES_AUTOINIT_INPROGRESS ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' /bin/sh '!=' '' ']' +++ export -f _module_raw +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ unset _mlcode _mlret +++ '[' -n '' ']' + module unload mpi/openmpi-aarch64 + local _mlredir=0 + '[' -n '' ']' + case " $@ " in + '[' 0 -eq 0 ']' + _module_raw unload mpi/openmpi-aarch64 ++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh unload mpi/openmpi-aarch64 + eval 'unset MPI_COMPILER; unset LD_LIBRARY_PATH; unset MPI_MAN; MANPATH=/usr/share/man:; export MANPATH; unset MPI_INCLUDE; unset _LMFILES_; unset LOADEDMODULES; unset CMAKE_PREFIX_PATH; PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig; export PKG_CONFIG_PATH; unset MPI_PYTHON3_SITEARCH; unset MPI_HOME; unset MPI_FORTRAN_MOD_DIR; unset __MODULES_LMALTNAME; unset __MODULES_LMCONFLICT; __MODULES_SHARE_MANPATH=:1; export __MODULES_SHARE_MANPATH; unset MPI_SUFFIX; unset MPI_SYSCONFIG; __MODULES_SHARE_PKG_CONFIG_PATH=:1; export __MODULES_SHARE_PKG_CONFIG_PATH; unset MPI_LIB; PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin; export PATH; unset MPI_BIN; test 0;' ++ unset MPI_COMPILER ++ unset LD_LIBRARY_PATH ++ unset MPI_MAN ++ MANPATH=/usr/share/man: ++ export MANPATH ++ unset MPI_INCLUDE ++ unset _LMFILES_ ++ unset LOADEDMODULES ++ unset CMAKE_PREFIX_PATH ++ PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ unset MPI_PYTHON3_SITEARCH ++ unset MPI_HOME ++ unset MPI_FORTRAN_MOD_DIR ++ unset __MODULES_LMALTNAME ++ unset __MODULES_LMCONFLICT ++ __MODULES_SHARE_MANPATH=:1 ++ export __MODULES_SHARE_MANPATH ++ unset MPI_SUFFIX ++ unset MPI_SYSCONFIG ++ __MODULES_SHARE_PKG_CONFIG_PATH=:1 ++ export __MODULES_SHARE_PKG_CONFIG_PATH ++ unset MPI_LIB ++ PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ unset MPI_BIN ++ test 0 + _mlstatus=0 + return 0 + for mpi in openmpi mpich + '[' mpich = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ '[' sh = sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD ']' +++ '[' LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' __MODULES_QUARANTINE_SET=1 ' ++++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' __MODULES_QUARANTINE_SET=1 /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ __MODULES_QUARANTINE_SET=1 +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; LOADEDMODULES=; export LOADEDMODULES; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval '_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; LOADEDMODULES=; export LOADEDMODULES; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ unset __MODULES_AUTOINIT_INPROGRESS ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ LOADEDMODULES= ++++ export LOADEDMODULES ++++ test 0 +++ '[' /bin/sh '!=' '' ']' +++ export -f _module_raw +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ unset _mlcode _mlret +++ '[' -n '' ']' + module load mpi/mpich-aarch64 + local _mlredir=0 + '[' -n '' ']' + case " $@ " in + '[' 0 -eq 0 ']' + _module_raw load mpi/mpich-aarch64 ++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh load mpi/mpich-aarch64 + eval 'LD_LIBRARY_PATH=/usr/lib64/mpich/lib; export LD_LIBRARY_PATH; MPI_COMPILER=mpich-aarch64; export MPI_COMPILER; MANPATH=/usr/share/man/mpich-aarch64:/usr/share/man:; export MANPATH; MPI_INCLUDE=/usr/include/mpich-aarch64; export MPI_INCLUDE; MPI_MAN=/usr/share/man/mpich-aarch64; export MPI_MAN; MPI_PYTHON_SITEARCH=%\{python2_sitearch\}/mpich; export MPI_PYTHON_SITEARCH; _LMFILES_=/usr/share/modulefiles/mpi/mpich-aarch64; export _LMFILES_; LOADEDMODULES=mpi/mpich-aarch64; export LOADEDMODULES; PKG_CONFIG_PATH=/usr/lib64/mpich/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig; export PKG_CONFIG_PATH; MPI_PYTHON3_SITEARCH=/usr/lib64/python3.13/site-packages/mpich; export MPI_PYTHON3_SITEARCH; MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/mpich; export MPI_FORTRAN_MOD_DIR; MPI_HOME=/usr/lib64/mpich; export MPI_HOME; __MODULES_LMCONFLICT=mpi/mpich-aarch64\&mpi; export __MODULES_LMCONFLICT; __MODULES_SHARE_MANPATH=:2; export __MODULES_SHARE_MANPATH; MPI_SYSCONFIG=/etc/mpich-aarch64; export MPI_SYSCONFIG; MPI_SUFFIX=_mpich; export MPI_SUFFIX; __MODULES_SHARE_PKG_CONFIG_PATH=:1; export __MODULES_SHARE_PKG_CONFIG_PATH; MPI_PYTHON2_SITEARCH=%\{python2_sitearch\}/mpich; export MPI_PYTHON2_SITEARCH; MPI_LIB=/usr/lib64/mpich/lib; export MPI_LIB; PATH=/usr/lib64/mpich/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin; export PATH; MPI_BIN=/usr/lib64/mpich/bin; export MPI_BIN; test 0;' ++ LD_LIBRARY_PATH=/usr/lib64/mpich/lib ++ export LD_LIBRARY_PATH ++ MPI_COMPILER=mpich-aarch64 ++ export MPI_COMPILER ++ MANPATH=/usr/share/man/mpich-aarch64:/usr/share/man: ++ export MANPATH ++ MPI_INCLUDE=/usr/include/mpich-aarch64 ++ export MPI_INCLUDE ++ MPI_MAN=/usr/share/man/mpich-aarch64 ++ export MPI_MAN ++ MPI_PYTHON_SITEARCH='%{python2_sitearch}/mpich' ++ export MPI_PYTHON_SITEARCH ++ _LMFILES_=/usr/share/modulefiles/mpi/mpich-aarch64 ++ export _LMFILES_ ++ LOADEDMODULES=mpi/mpich-aarch64 ++ export LOADEDMODULES ++ PKG_CONFIG_PATH=/usr/lib64/mpich/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MPI_PYTHON3_SITEARCH=/usr/lib64/python3.13/site-packages/mpich ++ export MPI_PYTHON3_SITEARCH ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/mpich ++ export MPI_FORTRAN_MOD_DIR ++ MPI_HOME=/usr/lib64/mpich ++ export MPI_HOME ++ __MODULES_LMCONFLICT='mpi/mpich-aarch64&mpi' ++ export __MODULES_LMCONFLICT ++ __MODULES_SHARE_MANPATH=:2 ++ export __MODULES_SHARE_MANPATH ++ MPI_SYSCONFIG=/etc/mpich-aarch64 ++ export MPI_SYSCONFIG ++ MPI_SUFFIX=_mpich ++ export MPI_SUFFIX ++ __MODULES_SHARE_PKG_CONFIG_PATH=:1 ++ export __MODULES_SHARE_PKG_CONFIG_PATH ++ MPI_PYTHON2_SITEARCH='%{python2_sitearch}/mpich' ++ export MPI_PYTHON2_SITEARCH ++ MPI_LIB=/usr/lib64/mpich/lib ++ export MPI_LIB ++ PATH=/usr/lib64/mpich/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ MPI_BIN=/usr/lib64/mpich/bin ++ export MPI_BIN ++ test 0 + _mlstatus=0 + return 0 + export 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer' + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer' + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=mpicc + export CC + CXX=mpicxx + export CXX + /usr/bin/cmake -S . -B build_mpich -DCMAKE_C_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_CXX_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_Fortran_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON -DCMAKE_INSTALL_DO_STRIP:BOOL=OFF -DCMAKE_INSTALL_PREFIX:PATH=/usr -DINCLUDE_INSTALL_DIR:PATH=/usr/include -DLIB_INSTALL_DIR:PATH=/usr/lib64 -DSYSCONF_INSTALL_DIR:PATH=/etc -DSHARE_INSTALL_PREFIX:PATH=/usr/share -DLIB_SUFFIX=64 -DBUILD_SHARED_LIBS:BOOL=ON -DBOUT_USE_FFTW=ON -DBOUT_USE_NETCDF=ON -DBOUT_USE_SCOREP=OFF -DBOUT_USE_SYSTEM_MPARK_VARIANT=ON -DBOUT_USE_LAPACK=ON -DBOUT_USE_NLS=ON -DBOUT_USE_SYSTEM_FMT=ON -DBOUT_USE_UUID_SYSTEM_GENERATOR=ON -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_INSTALL_LIBDIR=/usr/lib64/mpich/lib -DCMAKE_INSTALL_BINDIR=/usr/lib64/mpich/bin -DCMAKE_INSTALL_INCLUDEDIR=/usr/include/mpich-aarch64/bout++/ -DCMAKE_INSTALL_DATAROOTDIR=/usr/share -DCMAKE_INSTALL_PYTHON_SITEARCH=/usr/lib64/python3.13/site-packages/mpich -DBOUT_TEST_TIMEOUT=900 -DBOUT_BUILD_DOCS=ON -DBOUT_USE_PETSC=ON -DBOUT_USE_SUNDIALS=ON -- Configuring BOUT++ version 5.2.0 -- The CXX compiler identification is GNU 14.2.1 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/lib64/mpich/bin/mpicxx - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found Python3: /usr/bin/python3.13 (found version "3.13.0") found components: Interpreter -- Could NOT find ClangFormat (missing: ClangFormat_BIN) CMake Warning (dev) at CMakeLists.txt:396 (message): 'src/field/generated_fieldops.cxx' will not be regenerated when you make changes to either 'src/field/gen_fieldops.py' or 'src/field/gen_fieldops.jinja'. This is because either Python3 or clang-format is missing (see above messages for more information) or BOUT_GENERATE_FIELDOPS is OFF (current value: OFF). This warning is only important for BOUT++ developers and can otherwise be safely ignored. This warning is for project developers. Use -Wno-dev to suppress it. -- Found Python3: /usr/bin/python3.13 (found suitable version "3.13.0", minimum required is "3.6") found components: Interpreter Development Development.Module Development.Embed -- Found Numpy: /usr/include (found version "1.26.4") -- Found Cython: TRUE (found version "3.0.11") -- Found Bash: /usr/bin/bash (found version "5.2.37") -- Building BOUT++ Python interface -- Found MPI_CXX: /usr/lib64/mpich/bin/mpicxx (found version "4.1") -- Found MPI: TRUE (found version "4.1") -- Enable OpenMP: OFF -- HYPRE support: OFF -- Found PkgConfig: /usr/bin/pkg-config (found version "2.3.0") -- Checking for one of the modules 'PETSc>3.4.0;petsc>3.4.0' -- Found PETSc: /usr/include/mpich-aarch64/petsc -- PETSc support: ON -- Using external mpark.variant -- Using external fmt CMake Deprecation Warning at externalpackages/PVODE/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- PVODE support: ON -- Found netCDF: /usr/lib64/libnetcdf.so (found version "4.9.2") -- Found netCDFCxx version 4.3.1 -- Found netCDFCxx: /usr/lib64/libnetcdf_c++4.so (found version "4.3.1") -- NetCDF support: ON CMake Warning at cmake/SetupBOUTThirdParty.cmake:217 (find_package): By not providing "FindADIOS2.cmake" in CMAKE_MODULE_PATH this project has asked CMake to find a package configuration file provided by "ADIOS2", but CMake did not find one. Could not find a package configuration file provided by "ADIOS2" with any of the following names: ADIOS2Config.cmake adios2-config.cmake Add the installation prefix of "ADIOS2" to CMAKE_PREFIX_PATH or set "ADIOS2_DIR" to a directory containing one of the above files. If "ADIOS2" provides a separate development package or SDK, be sure it has been installed. Call Stack (most recent call first): CMakeLists.txt:479 (include) -- ADIOS2 support: OFF -- Found FFTW: /usr/lib64/libfftw3.so -- FFTW support: ON -- Looking for sgemm_ -- Looking for sgemm_ - not found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Looking for sgemm_ -- Looking for sgemm_ - found -- Found BLAS: /usr/lib64/libflexiblas.so -- Looking for cheev_ -- Looking for cheev_ - found -- Found LAPACK: /usr/lib64/libflexiblas.so;-lm;-ldl -- LAPACK support: TRUE -- SLEPc support: OFF -- The C compiler identification is GNU 14.2.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/lib64/mpich/bin/mpicc - skipped -- Detecting C compile features -- Detecting C compile features - done -- SUNDIALS support: ON -- Found Gettext: /usr/bin/msgmerge (found version "0.22.5") -- Found Intl: built in to C library -- libuuid not found, using fallback UUID generator -- UUID_SYSTEM_GENERATOR: FALSE -- Enable coverage: OFF -- Git revision: Unknown -- Performing Test HAS_FLAG__Wnull_dereference -- Performing Test HAS_FLAG__Wnull_dereference - Success -- Warning flag is supported by compiler: -Wnull-dereference -- Found negative flag: -Wno-cast-function-type replaced with -Wcast-function-type -- Performing Test HAS_FLAG__Wno_cast_function_type -- Performing Test HAS_FLAG__Wno_cast_function_type - Success -- Warning flag is supported by compiler: -Wno-cast-function-type -- Runtime checking level: CHECK=2 -- Message stack: BOUT_USE_MSGSTACK=ON -- Extra debug output: BOUT_USE_OUTPUT_DEBUG=OFF -- Signal handling: BOUT_USE_SIGNAL=ON -- Output coloring: BOUT_USE_COLOR=ON -- Field name tracking: BOUT_USE_TRACK=ON -- Signalling floating point exceptions: BOUT_USE_SIGFPE=OFF -- Enable backtrace: BOUT_USE_BACKTRACE=ON -- Performing Test HAS_PRETTY_FUNCTION -- Performing Test HAS_PRETTY_FUNCTION - Success -- Setting build type to 'RelWithDebInfo' as none was specified. -- Found Python3: /usr/bin/python3.13 (found version "3.13.0") found components: Interpreter -- Not building test test-laplace-hypre3d, requirement not met: BOUT_HAS_HYPRE -- Not building test test-laplacexy2-hypre, requirement not met: BOUT_HAS_HYPRE -- Not building test test-options-adios, requirement not met: BOUT_HAS_ADIOS2 -- Not building test test-slepc-solver, requirement not met: BOUT_HAS_SLEPC -- Not building test MMS-advection-arakawa, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-advection-central, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-advection-upwind, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-advection-weno3, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-diffusion2, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-hw, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-laplace, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-spatial-advection, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-spatial-d2dx2, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-spatial-d2dz2, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-spatial-diffusion, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-time, requirement not met: BOUT_RUN_ALL_TESTS -- Not building test MMS-time-petsc, requirement not met: BOUT_RUN_ALL_TESTS -- Not building example test_laplacexy_hypre, requirement not met: BOUT_HAS_HYPRE -- Found Doxygen: /usr/bin/doxygen (found version "1.12.0") found components: doxygen dot -- Found Sphinx: /usr/bin/sphinx-build -------------------------------- BOUT++ Configuration Summary -------------------------------- Bundled PVODE support : ON PETSc support : ON SLEPc support : OFF SUNDIALS support : ON HYPRE support : OFF NetCDF support : ON ADIOS2 support : OFF FFTW support : ON LAPACK support : TRUE OpenMP support : OFF Natural language support : ON ScoreP support : OFF System UUID generator : FALSE Extra debug output : OFF Runtime error check level: 2 Signal handling : ON Output coloring : ON Field name tracking : ON Floating point exceptions: OFF Backtrace enabled : ON RAJA enabled : OFF Umpire enabled : OFF Caliper enabled : OFF CUDA enabled : OFF Metric type : 2D Python API support : ON Sanitizers enabled : None === Python === Make sure that the tools/pylib directory is in your PYTHONPATH e.g. by adding to your ~/.bashrc file export PYTHONPATH=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib:/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib:$PYTHONPATH *** Now run `cmake --build /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich` to compile BOUT++ *** -- Configuring done (6.8s) -- Generating done (0.5s) CMake Warning: Manually-specified variables were not used by the project: BOUT_TEST_TIMEOUT CMAKE_CXX_FLAGS_RELEASE CMAKE_C_FLAGS_RELEASE CMAKE_Fortran_FLAGS_RELEASE CMAKE_INSTALL_DO_STRIP INCLUDE_INSTALL_DIR LIB_INSTALL_DIR LIB_SUFFIX SHARE_INSTALL_PREFIX SYSCONF_INSTALL_DIR -- Build files have been written to: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich + /usr/bin/cmake --build build_mpich -j4 --verbose Change Dir: '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' Run Build Command(s): /usr/bin/cmake -E env VERBOSE=1 /usr/bin/gmake -f Makefile -j4 /usr/bin/cmake -S/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f -B/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/CMakeFiles /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich//CMakeFiles/progress.marks /usr/bin/gmake -f CMakeFiles/Makefile2 all gmake[1]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' /usr/bin/gmake -f externalpackages/PVODE/CMakeFiles/pvpre.dir/build.make externalpackages/PVODE/CMakeFiles/pvpre.dir/depend /usr/bin/gmake -f externalpackages/PVODE/CMakeFiles/pvode.dir/build.make externalpackages/PVODE/CMakeFiles/pvode.dir/depend /usr/bin/gmake -f CMakeFiles/mofiles.dir/build.make CMakeFiles/mofiles.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE/CMakeFiles/pvpre.dir/DependInfo.cmake "--color=" gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE/CMakeFiles/pvode.dir/DependInfo.cmake "--color=" gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/CMakeFiles/mofiles.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' /usr/bin/gmake -f externalpackages/PVODE/CMakeFiles/pvpre.dir/build.make externalpackages/PVODE/CMakeFiles/pvpre.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' /usr/bin/gmake -f externalpackages/PVODE/CMakeFiles/pvode.dir/build.make externalpackages/PVODE/CMakeFiles/pvode.dir/build /usr/bin/gmake -f CMakeFiles/mofiles.dir/build.make CMakeFiles/mofiles.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [ 0%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/cvode.cpp.o [ 0%] Building CXX object externalpackages/PVODE/CMakeFiles/pvpre.dir/precon/band.cpp.o [ 0%] Building CXX object externalpackages/PVODE/CMakeFiles/pvpre.dir/precon/pvbbdpre.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/lib64/mpich/bin/mpicxx -Dpvpre_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvpre.dir/precon/pvbbdpre.cpp.o -MF CMakeFiles/pvpre.dir/precon/pvbbdpre.cpp.o.d -o CMakeFiles/pvpre.dir/precon/pvbbdpre.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/precon/pvbbdpre.cpp cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/lib64/mpich/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/cvode.cpp.o -MF CMakeFiles/pvode.dir/source/cvode.cpp.o.d -o CMakeFiles/pvode.dir/source/cvode.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp [ 0%] Generating locale/es/libbout.gmo, _mo_file_es cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/locale/es/ cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/lib64/mpich/bin/mpicxx -Dpvpre_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvpre.dir/precon/band.cpp.o -MF CMakeFiles/pvpre.dir/precon/band.cpp.o.d -o CMakeFiles/pvpre.dir/precon/band.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/precon/band.cpp cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/msgfmt -o /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/locale/es/libbout.gmo /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/locale/es/libbout.po [ 0%] Generating locale/de/libbout.gmo, _mo_file_de cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/locale/de/ cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/msgfmt -o /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/locale/de/libbout.gmo /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/locale/de/libbout.po [ 2%] Generating locale/fr/libbout.gmo, _mo_file_fr cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/locale/fr/ cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/msgfmt -o /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/locale/fr/libbout.gmo /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/locale/fr/libbout.po [ 2%] Generating locale/zh_CN/libbout.gmo, _mo_file_zh_CN cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/locale/zh_CN/ cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/msgfmt -o /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/locale/zh_CN/libbout.gmo /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/locale/zh_CN/libbout.po [ 2%] Generating locale/zh_TW/libbout.gmo, _mo_file_zh_TW cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/locale/zh_TW/ cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f && /usr/bin/msgfmt -o /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/locale/zh_TW/libbout.gmo /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/locale/zh_TW/libbout.po gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [ 2%] Built target mofiles [ 2%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/nvector.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/lib64/mpich/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/nvector.cpp.o -MF CMakeFiles/pvode.dir/source/nvector.cpp.o.d -o CMakeFiles/pvode.dir/source/nvector.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp [ 5%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/llnlmath.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/lib64/mpich/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/llnlmath.cpp.o -MF CMakeFiles/pvode.dir/source/llnlmath.cpp.o.d -o CMakeFiles/pvode.dir/source/llnlmath.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/llnlmath.cpp /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:429: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 429 | #pragma omp parallel for reduction(+: sum) /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:485: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 485 | #pragma omp parallel for reduction(+: sum) /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:543: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 543 | #pragma omp parallel for reduction(+: sum) /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:565: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 565 | #pragma omp parallel for reduction(+: sum) /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:583: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 583 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:698: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 698 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:714: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 714 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:730: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 730 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:745: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 745 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:761: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 761 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:777: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 777 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:793: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 793 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:809: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 809 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:824: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 824 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:831: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 831 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:837: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 837 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:850: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 850 | #pragma omp parallel for /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp: In function ‘void pvode::N_VLinearSum(real, N_Vector, real, N_Vector, N_Vector)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:189:12: warning: unused variable ‘v’ [-Wunused-variable] 189 | N_Vector v, v1, v2; | ^ [ 8%] Linking CXX shared library ../../lib/libpvpre.so /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp: In function ‘pvode::real pvode::N_VWL2Norm(N_Vector, N_Vector)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/nvector.cpp:533:14: warning: variable ‘N_global’ set but not used [-Wunused-but-set-variable] 533 | integer N, N_global; | ^~~~~~~~ cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/bin/cmake -E cmake_link_script CMakeFiles/pvpre.dir/link.txt --verbose=1 In function ‘pvode::CVnlsFunctional(pvode::CVodeMemRec*)’, inlined from ‘pvode::CVnls(pvode::CVodeMemRec*, int)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1826:45, inlined from ‘pvode::CVStep(pvode::CVodeMemRec*)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1358:18, inlined from ‘pvode::CVode(void*, double, pvode::nvec_type*, double*, int)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:882:19: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1876:49: warning: ‘delp’ may be used uninitialized [-Wmaybe-uninitialized] 1876 | if ((m==maxcor) || ((m >= 2) && (del > RDIV * delp))) | ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp: In function ‘pvode::CVode(void*, double, pvode::nvec_type*, double*, int)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1843:13: note: ‘delp’ was declared here 1843 | real del, delp, dcon; | ^~~~ In function ‘pvode::CVNewtonIteration(pvode::CVodeMemRec*)’, inlined from ‘pvode::CVnlsNewton(pvode::CVodeMemRec*, int)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1944:28, inlined from ‘pvode::CVnls(pvode::CVodeMemRec*, int)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1827:41, inlined from ‘pvode::CVStep(pvode::CVodeMemRec*)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1358:18, inlined from ‘pvode::CVode(void*, double, pvode::nvec_type*, double*, int)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:882:19: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:2021:50: warning: ‘delp’ may be used uninitialized [-Wmaybe-uninitialized] 2021 | if ((m == maxcor) || ((m >= 2) && (del > RDIV*delp))) { | ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp: In function ‘pvode::CVode(void*, double, pvode::nvec_type*, double*, int)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvode.cpp:1971:13: note: ‘delp’ was declared here 1971 | real del, delp, dcon; | ^~~~ [ 8%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/cvspgmr.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/lib64/mpich/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/cvspgmr.cpp.o -MF CMakeFiles/pvode.dir/source/cvspgmr.cpp.o.d -o CMakeFiles/pvode.dir/source/cvspgmr.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvspgmr.cpp [ 8%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/spgmr.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/lib64/mpich/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/spgmr.cpp.o -MF CMakeFiles/pvode.dir/source/spgmr.cpp.o.d -o CMakeFiles/pvode.dir/source/spgmr.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp /usr/lib64/mpich/bin/mpicxx -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -Wl,--dependency-file=CMakeFiles/pvpre.dir/link.d -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -shared -Wl,-soname,libpvpre.so.1.0.0 -o ../../lib/libpvpre.so.1.0.0 CMakeFiles/pvpre.dir/precon/pvbbdpre.cpp.o CMakeFiles/pvpre.dir/precon/band.cpp.o -Wl,-rpath,::::::::::::::::::::::::: cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/bin/cmake -E cmake_symlink_library ../../lib/libpvpre.so.1.0.0 ../../lib/libpvpre.so.1.0.0 ../../lib/libpvpre.so gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [ 8%] Built target pvpre /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp: In function ‘int pvode::SpgmrSolve(SpgmrMem, void*, N_Vector, N_Vector, int, int, real, int, void*, N_Vector, N_Vector, ATimesFn, PSolveFn, real*, int*, int*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp:159:8: warning: unused variable ‘s_r0_norm’ [-Wunused-variable] 159 | real s_r0_norm, beta, rotation_product, r_norm, s_product, rho; | ^~~~~~~~~ [ 8%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/iterativ.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/lib64/mpich/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/iterativ.cpp.o -MF CMakeFiles/pvode.dir/source/iterativ.cpp.o.d -o CMakeFiles/pvode.dir/source/iterativ.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/iterativ.cpp [ 11%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/cvdiag.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/lib64/mpich/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/cvdiag.cpp.o -MF CMakeFiles/pvode.dir/source/cvdiag.cpp.o.d -o CMakeFiles/pvode.dir/source/cvdiag.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/cvdiag.cpp [ 11%] Building CXX object externalpackages/PVODE/CMakeFiles/pvode.dir/source/smalldense.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/lib64/mpich/bin/mpicxx -Dpvode_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT externalpackages/PVODE/CMakeFiles/pvode.dir/source/smalldense.cpp.o -MF CMakeFiles/pvode.dir/source/smalldense.cpp.o.d -o CMakeFiles/pvode.dir/source/smalldense.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/smalldense.cpp /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp:328:17: warning: ‘krydim’ may be used uninitialized [-Wmaybe-uninitialized] 328 | for (i=1; i <= krydim; i++) yg[i]=ZERO; | ~~^~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp:161:36: note: ‘krydim’ was declared here 161 | int i, j, k, l, l_plus_1, l_max, krydim, ier, ntries; | ^~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp:386:3: warning: ‘rho’ may be used uninitialized [-Wmaybe-uninitialized] 386 | if (rho < beta) { | ^~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/spgmr.cpp:159:62: note: ‘rho’ was declared here 159 | real s_r0_norm, beta, rotation_product, r_norm, s_product, rho; | ^~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/smalldense.cpp: In function ‘pvode::integer pvode::gefa(real**, integer, integer*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/source/smalldense.cpp:82:14: warning: suggest parentheses around assignment used as truth value [-Wparentheses] 82 | if (swap = (l != k)) { | ~~~~~^~~~~~~~~~ [ 11%] Linking CXX shared library ../../lib/libpvode.so cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/bin/cmake -E cmake_link_script CMakeFiles/pvode.dir/link.txt --verbose=1 /usr/lib64/mpich/bin/mpicxx -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -Wl,--dependency-file=CMakeFiles/pvode.dir/link.d -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -shared -Wl,-soname,libpvode.so.1.0.0 -o ../../lib/libpvode.so.1.0.0 CMakeFiles/pvode.dir/source/cvode.cpp.o CMakeFiles/pvode.dir/source/nvector.cpp.o CMakeFiles/pvode.dir/source/llnlmath.cpp.o CMakeFiles/pvode.dir/source/cvspgmr.cpp.o CMakeFiles/pvode.dir/source/spgmr.cpp.o CMakeFiles/pvode.dir/source/iterativ.cpp.o CMakeFiles/pvode.dir/source/cvdiag.cpp.o CMakeFiles/pvode.dir/source/smalldense.cpp.o -Wl,-rpath,::::::::::::::::::::::::: cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/externalpackages/PVODE && /usr/bin/cmake -E cmake_symlink_library ../../lib/libpvode.so.1.0.0 ../../lib/libpvode.so.1.0.0 ../../lib/libpvode.so gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [ 11%] Built target pvode /usr/bin/gmake -f CMakeFiles/bout++.dir/build.make CMakeFiles/bout++.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [ 14%] Generating bout++-time.cxx /usr/bin/cmake -P /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/cmake/GenerateDateTimeFile.cmake cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/CMakeFiles/bout++.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' /usr/bin/gmake -f CMakeFiles/bout++.dir/build.make CMakeFiles/bout++.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [ 17%] Building CXX object CMakeFiles/bout++.dir/src/field/field3d.cxx.o [ 14%] Building CXX object CMakeFiles/bout++.dir/src/field/field2d.cxx.o [ 17%] Building CXX object CMakeFiles/bout++.dir/src/field/field.cxx.o [ 17%] Building CXX object CMakeFiles/bout++.dir/src/bout++.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/bout++.cxx.o -MF CMakeFiles/bout++.dir/src/bout++.cxx.o.d -o CMakeFiles/bout++.dir/src/bout++.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/field/field.cxx.o -MF CMakeFiles/bout++.dir/src/field/field.cxx.o.d -o CMakeFiles/bout++.dir/src/field/field.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/field.cxx /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/field/field2d.cxx.o -MF CMakeFiles/bout++.dir/src/field/field2d.cxx.o.d -o CMakeFiles/bout++.dir/src/field/field2d.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/field2d.cxx /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/field/field3d.cxx.o -MF CMakeFiles/bout++.dir/src/field/field3d.cxx.o.d -o CMakeFiles/bout++.dir/src/field/field3d.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/field3d.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_op.hxx:7, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/field3d.cxx:35: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 17%] Building CXX object CMakeFiles/bout++.dir/src/field/field_data.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/field/field_data.cxx.o -MF CMakeFiles/bout++.dir/src/field/field_data.cxx.o.d -o CMakeFiles/bout++.dir/src/field/field_data.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/field_data.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_op.hxx:7, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/field_data.cxx:2: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 17%] Building CXX object CMakeFiles/bout++.dir/src/field/field_factory.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/field/field_factory.cxx.o -MF CMakeFiles/bout++.dir/src/field/field_factory.cxx.o.d -o CMakeFiles/bout++.dir/src/field/field_factory.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/field_factory.cxx [ 17%] Building CXX object CMakeFiles/bout++.dir/src/field/fieldgenerators.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/field/fieldgenerators.cxx.o -MF CMakeFiles/bout++.dir/src/field/fieldgenerators.cxx.o.d -o CMakeFiles/bout++.dir/src/field/fieldgenerators.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/field/fieldgenerators.cxx [ 20%] Building CXX object CMakeFiles/bout++.dir/src/field/fieldgroup.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g 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-specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/invert/laplace/impls/hypre3d/hypre3d_laplace.cxx.o -MF CMakeFiles/bout++.dir/src/invert/laplace/impls/hypre3d/hypre3d_laplace.cxx.o.d -o CMakeFiles/bout++.dir/src/invert/laplace/impls/hypre3d/hypre3d_laplace.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/laplace/impls/hypre3d/hypre3d_laplace.cxx [ 34%] Building CXX object CMakeFiles/bout++.dir/src/invert/laplace/invert_laplace.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g 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-I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/invert/laplacexy2/laplacexy2_hypre.cxx.o -MF CMakeFiles/bout++.dir/src/invert/laplacexy2/laplacexy2_hypre.cxx.o.d -o CMakeFiles/bout++.dir/src/invert/laplacexy2/laplacexy2_hypre.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/laplacexy2/laplacexy2_hypre.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/laplacexy2/laplacexy2_hypre.cxx:1: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/invert/laplacexy2_hypre.hxx:41:2: warning: #warning LaplaceXY requires Hypre. No LaplaceXY available [-Wcpp] 41 | #warning LaplaceXY requires Hypre. No LaplaceXY available | ^~~~~~~ [ 37%] Building CXX object CMakeFiles/bout++.dir/src/invert/laplacexz/impls/cyclic/laplacexz-cyclic.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include 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-I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/invert/laplacexz/impls/petsc/laplacexz-petsc.cxx.o -MF CMakeFiles/bout++.dir/src/invert/laplacexz/impls/petsc/laplacexz-petsc.cxx.o.d -o CMakeFiles/bout++.dir/src/invert/laplacexz/impls/petsc/laplacexz-petsc.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/laplacexz/impls/petsc/laplacexz-petsc.cxx [ 40%] Building CXX object CMakeFiles/bout++.dir/src/invert/laplacexz/laplacexz.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/invert/laplacexz/laplacexz.cxx.o -MF CMakeFiles/bout++.dir/src/invert/laplacexz/laplacexz.cxx.o.d -o CMakeFiles/bout++.dir/src/invert/laplacexz/laplacexz.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/laplacexz/laplacexz.cxx [ 40%] Building CXX object CMakeFiles/bout++.dir/src/invert/parderiv/impls/cyclic/cyclic.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/invert/parderiv/impls/cyclic/cyclic.cxx.o -MF CMakeFiles/bout++.dir/src/invert/parderiv/impls/cyclic/cyclic.cxx.o.d -o CMakeFiles/bout++.dir/src/invert/parderiv/impls/cyclic/cyclic.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/parderiv/impls/cyclic/cyclic.cxx [ 40%] Building CXX object CMakeFiles/bout++.dir/src/invert/parderiv/invert_parderiv.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/invert/parderiv/invert_parderiv.cxx.o -MF CMakeFiles/bout++.dir/src/invert/parderiv/invert_parderiv.cxx.o.d -o CMakeFiles/bout++.dir/src/invert/parderiv/invert_parderiv.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/parderiv/invert_parderiv.cxx [ 42%] Building CXX object CMakeFiles/bout++.dir/src/invert/pardiv/impls/cyclic/pardiv_cyclic.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/invert/pardiv/impls/cyclic/pardiv_cyclic.cxx.o -MF CMakeFiles/bout++.dir/src/invert/pardiv/impls/cyclic/pardiv_cyclic.cxx.o.d -o CMakeFiles/bout++.dir/src/invert/pardiv/impls/cyclic/pardiv_cyclic.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/pardiv/impls/cyclic/pardiv_cyclic.cxx [ 42%] Building CXX object CMakeFiles/bout++.dir/src/invert/pardiv/invert_pardiv.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/invert/pardiv/invert_pardiv.cxx.o -MF CMakeFiles/bout++.dir/src/invert/pardiv/invert_pardiv.cxx.o.d -o CMakeFiles/bout++.dir/src/invert/pardiv/invert_pardiv.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/pardiv/invert_pardiv.cxx [ 42%] Building CXX object CMakeFiles/bout++.dir/src/mesh/boundary_factory.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/boundary_factory.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/boundary_factory.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/boundary_factory.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_factory.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_op.hxx:7, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_factory.cxx:1: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 42%] Building CXX object CMakeFiles/bout++.dir/src/mesh/boundary_region.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/boundary_region.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/boundary_region.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/boundary_region.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_region.cxx [ 42%] Building CXX object CMakeFiles/bout++.dir/src/mesh/boundary_standard.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/boundary_standard.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/boundary_standard.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/boundary_standard.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx [ 45%] Building CXX object CMakeFiles/bout++.dir/src/mesh/coordinates.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/coordinates.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/coordinates.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/coordinates.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/coordinates.cxx /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx: In function ‘void verifyNumPoints(BoundaryRegion*, int)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:80:21: warning: ‘virtual bool Mesh::firstY() const’ is deprecated: Please use firstY(xind) instead [-Wdeprecated-declarations] 80 | if (mesh->firstY()) { | ~~~~~~~~~~~~^~ In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field_factory.hxx:32, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/boundary_standard.hxx:9, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:1: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/mesh.hxx:447:66: note: declared here 447 | [[deprecated("Please use firstY(xind) instead")]] virtual bool firstY() const = 0; | ^~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:83:20: warning: ‘virtual bool Mesh::lastY() const’ is deprecated: Please use lastY(xind) instead [-Wdeprecated-declarations] 83 | if (mesh->lastY()) { | ~~~~~~~~~~~^~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/mesh.hxx:451:65: note: declared here 451 | [[deprecated("Please use lastY(xind) instead")]] virtual bool lastY() const = 0; | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx: In member function ‘virtual void BoundaryDirichlet::apply(Field3D&, BoutReal)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:473:31: warning: ‘virtual double FieldGenerator::generate(BoutReal, BoutReal, BoutReal, BoutReal)’ is deprecated: This will be removed in a future version. Implementations should override the Context version of this function. [-Wdeprecated-declarations] 473 | val = fg->generate(xnorm, TWOPI * ynorm, TWOPI * (zk - 0.5) / (mesh->LocalNz), | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 474 | t); | ~~ In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field_data.hxx:50, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field.hxx:39, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field2d.hxx:34, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/boundary_op.hxx:9, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/boundary_standard.hxx:6: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sys/expressionparser.hxx:69:3: note: declared here 69 | generate(BoutReal x, BoutReal y, BoutReal z, BoutReal t) { | ^~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:517:33: warning: ‘virtual double FieldGenerator::generate(BoutReal, BoutReal, BoutReal, BoutReal)’ is deprecated: This will be removed in a future version. Implementations should override the Context version of this function. [-Wdeprecated-declarations] 517 | val = fg->generate(xnorm, TWOPI * ynorm, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 518 | TWOPI * (zk - 0.5) / (mesh->LocalNz), t); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sys/expressionparser.hxx:69:3: note: declared here 69 | generate(BoutReal x, BoutReal y, BoutReal z, BoutReal t) { | ^~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx: In member function ‘virtual void BoundaryDirichlet_O3::apply(Field3D&, BoutReal)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:978:31: warning: ‘virtual double FieldGenerator::generate(BoutReal, BoutReal, BoutReal, BoutReal)’ is deprecated: This will be removed in a future version. Implementations should override the Context version of this function. [-Wdeprecated-declarations] 978 | val = fg->generate(xnorm, TWOPI * ynorm, TWOPI * (zk - 0.5) / (mesh->LocalNz), | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 979 | t); | ~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sys/expressionparser.hxx:69:3: note: declared here 69 | generate(BoutReal x, BoutReal y, BoutReal z, BoutReal t) { | ^~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx: In member function ‘virtual void BoundaryDirichlet_O4::apply(Field3D&, BoutReal)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:1444:31: warning: ‘virtual double FieldGenerator::generate(BoutReal, BoutReal, BoutReal, BoutReal)’ is deprecated: This will be removed in a future version. Implementations should override the Context version of this function. [-Wdeprecated-declarations] 1444 | val = fg->generate(xnorm, TWOPI * ynorm, TWOPI * (zk - 0.5) / (mesh->LocalNz), | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1445 | t); | ~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sys/expressionparser.hxx:69:3: note: declared here 69 | generate(BoutReal x, BoutReal y, BoutReal z, BoutReal t) { | ^~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx: In member function ‘virtual void BoundaryNeumann::apply(Field3D&, BoutReal)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/boundary_standard.cxx:2152:33: warning: ‘virtual double FieldGenerator::generate(BoutReal, BoutReal, BoutReal, BoutReal)’ is deprecated: This will be removed in a future version. Implementations should override the Context version of this function. [-Wdeprecated-declarations] 2152 | val = fg->generate(xnorm, TWOPI * ynorm, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2153 | TWOPI * (zk - 0.5) / (mesh->LocalNz), t); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sys/expressionparser.hxx:69:3: note: declared here 69 | generate(BoutReal x, BoutReal y, BoutReal z, BoutReal t) { | ^~~~~~~~ In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/fci.hxx:31, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/coordinates.cxx:21: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 45%] Building CXX object CMakeFiles/bout++.dir/src/mesh/coordinates_accessor.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/coordinates_accessor.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/coordinates_accessor.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/coordinates_accessor.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/coordinates_accessor.cxx [ 45%] Building CXX object CMakeFiles/bout++.dir/src/mesh/data/gridfromfile.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/data/gridfromfile.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/data/gridfromfile.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/data/gridfromfile.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/data/gridfromfile.cxx [ 45%] Building CXX object CMakeFiles/bout++.dir/src/mesh/data/gridfromoptions.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/data/gridfromoptions.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/data/gridfromoptions.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/data/gridfromoptions.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/data/gridfromoptions.cxx [ 48%] Building CXX object CMakeFiles/bout++.dir/src/mesh/difops.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/difops.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/difops.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/difops.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/difops.cxx [ 48%] Building CXX object CMakeFiles/bout++.dir/src/mesh/fv_ops.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/fv_ops.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/fv_ops.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/fv_ops.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/fv_ops.cxx [ 48%] Building CXX object CMakeFiles/bout++.dir/src/mesh/impls/bout/boutmesh.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/impls/bout/boutmesh.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/impls/bout/boutmesh.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/impls/bout/boutmesh.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:48: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/fv_ops.cxx: In function ‘FV::communicateFluxes(Field3D&)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/fv_ops.cxx:471:15: warning: ‘xout’ may be used uninitialized [-Wmaybe-uninitialized] 471 | mesh->wait(xout); | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/fv_ops.cxx:442:20: note: ‘xout’ was declared here 442 | comm_handle xin, xout; | ^~~~ [ 48%] Building CXX object CMakeFiles/bout++.dir/src/mesh/index_derivs.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/index_derivs.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/index_derivs.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/index_derivs.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/index_derivs.cxx [ 51%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation_xz.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation_xz.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation_xz.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation_xz.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation_xz.cxx [ 51%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation/bilinear_xz.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation/bilinear_xz.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation/bilinear_xz.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation/bilinear_xz.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation/bilinear_xz.cxx In file included from /usr/include/c++/14/bits/shared_ptr.h:53, from /usr/include/c++/14/memory:80, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field.hxx:36, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field2d.hxx:34, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/options.hxx:43, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/deriv_store.hxx:42, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/mesh.hxx:48, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.hxx:8, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:36: In member function ‘std::__shared_ptr, (__gnu_cxx::_Lock_policy)2>::operator bool() const’, inlined from ‘std::operator== >(std::shared_ptr > const&, decltype(nullptr))bool’ at /usr/include/c++/14/bits/shared_ptr.h:561:14, inlined from ‘Array >::empty() const’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/array.hxx:270:44, inlined from ‘Field3D::isAllocated() const’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field3d.hxx:204:48, inlined from ‘BoutMesh::pack_data(std::vector > const&, int, int, int, int, double*)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:2300:7: /usr/include/c++/14/bits/shared_ptr_base.h:1671:16: warning: potential null pointer dereference [-Wnull-dereference] 1671 | { return _M_ptr != nullptr; } | ^~~~~~ In member function ‘std::__shared_ptr, (__gnu_cxx::_Lock_policy)2>::operator bool() const’, inlined from ‘std::operator== >(std::shared_ptr > const&, decltype(nullptr))bool’ at /usr/include/c++/14/bits/shared_ptr.h:561:14, inlined from ‘Array >::empty() const’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/array.hxx:270:44, inlined from ‘Field2D::isAllocated() const’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/field2d.hxx:106:48, inlined from ‘BoutMesh::pack_data(std::vector > const&, int, int, int, int, double*)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:2311:7: /usr/include/c++/14/bits/shared_ptr_base.h:1671:16: warning: potential null pointer dereference [-Wnull-dereference] 1671 | { return _M_ptr != nullptr; } | ^~~~~~ [ 51%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_xz.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_xz.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_xz.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_xz.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation/hermite_spline_xz.cxx [ 51%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_z.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_z.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_z.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation/hermite_spline_z.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation/hermite_spline_z.cxx [ 54%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation/interpolation_z.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation/interpolation_z.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation/interpolation_z.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation/interpolation_z.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation/interpolation_z.cxx [ 54%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation/lagrange_4pt_xz.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation/lagrange_4pt_xz.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation/lagrange_4pt_xz.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation/lagrange_4pt_xz.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation/lagrange_4pt_xz.cxx [ 54%] Building CXX object CMakeFiles/bout++.dir/src/mesh/interpolation/monotonic_hermite_spline_xz.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/interpolation/monotonic_hermite_spline_xz.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/interpolation/monotonic_hermite_spline_xz.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/interpolation/monotonic_hermite_spline_xz.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/interpolation/monotonic_hermite_spline_xz.cxx [ 54%] Building CXX object CMakeFiles/bout++.dir/src/mesh/mesh.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/mesh.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/mesh.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/mesh.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/mesh.cxx [ 54%] Building CXX object CMakeFiles/bout++.dir/src/mesh/parallel/fci.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/parallel/fci.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/parallel/fci.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/parallel/fci.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/fci.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/fci.hxx:31, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/fci.cxx:39: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 57%] Building CXX object CMakeFiles/bout++.dir/src/mesh/parallel/identity.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/parallel/identity.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/parallel/identity.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/parallel/identity.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/identity.cxx [ 57%] Building CXX object CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetric.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetric.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetric.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetric.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/shiftedmetric.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/shiftedmetric.cxx:9: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 57%] Building CXX object CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetricinterp.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetricinterp.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetricinterp.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/parallel/shiftedmetricinterp.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/shiftedmetricinterp.cxx [ 57%] Building CXX object CMakeFiles/bout++.dir/src/mesh/parallel_boundary_op.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/parallel_boundary_op.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/parallel_boundary_op.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/parallel_boundary_op.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel_boundary_op.cxx In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel/shiftedmetricinterp.cxx:32: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_op.hxx:7, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel_boundary_op.cxx:1: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(Ind3D, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:99:53: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 99 | bndry_points.push_back({ind, {x, y, z}, length, valid}); | ^~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx: In member function ‘void BoundaryRegionPar::add_point(int, int, int, BoutReal, BoutReal, BoutReal, BoutReal, char)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/parallel_boundary_region.hxx:103:80: warning: narrowing conversion of ‘valid’ from ‘char’ to ‘signed char’ [-Wnarrowing] 103 | bndry_points.push_back({xyz2ind(ix, iy, iz, localmesh), {x, y, z}, length, valid}); | ^~~~~ [ 60%] Building CXX object CMakeFiles/bout++.dir/src/mesh/parallel_boundary_region.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/mesh/parallel_boundary_region.cxx.o -MF CMakeFiles/bout++.dir/src/mesh/parallel_boundary_region.cxx.o.d -o CMakeFiles/bout++.dir/src/mesh/parallel_boundary_region.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/parallel_boundary_region.cxx [ 60%] Building CXX object CMakeFiles/bout++.dir/src/mesh/surfaceiter.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security 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/usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/solver/impls/arkode/arkode.cxx.o -MF CMakeFiles/bout++.dir/src/solver/impls/arkode/arkode.cxx.o.d -o CMakeFiles/bout++.dir/src/solver/impls/arkode/arkode.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx [ 65%] Building CXX object CMakeFiles/bout++.dir/src/solver/impls/cvode/cvode.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/solver/impls/cvode/cvode.cxx.o -MF CMakeFiles/bout++.dir/src/solver/impls/cvode/cvode.cxx.o.d -o CMakeFiles/bout++.dir/src/solver/impls/cvode/cvode.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In destructor ‘virtual ArkodeSolver::~ArkodeSolver()’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:154:14: warning: ‘void ARKStepFree(void**)’ is deprecated: use ARKodeFree instead [-Wdeprecated-declarations] 154 | ARKStepFree(&arkode_mem); | ~~~~~~~~~~~^~~~~~~~~~~~~ In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:43: /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:399:6: note: declared here 399 | void ARKStepFree(void** arkode_mem); | ^~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In member function ‘virtual int ArkodeSolver::init()’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:240:25: warning: ‘int ARKStepSetUserData(void*, void*)’ is deprecated: use ARKodeSetUserData instead [-Wdeprecated-declarations] 240 | if (ARKStepSetUserData(arkode_mem, this) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:229:5: note: declared here 229 | int ARKStepSetUserData(void* arkode_mem, void* user_data); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:244:23: warning: ‘int ARKStepSetLinear(void*, int)’ is deprecated: use ARKodeSetLinear instead [-Wdeprecated-declarations] 244 | if (ARKStepSetLinear(arkode_mem, set_linear) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:148:5: note: declared here 148 | int ARKStepSetLinear(void* arkode_mem, int timedepend); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:251:28: warning: ‘int ARKStepSetFixedStep(void*, sunrealtype)’ is deprecated: use ARKodeSetFixedStep instead [-Wdeprecated-declarations] 251 | if (ARKStepSetFixedStep(arkode_mem, fixed_timestep) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:221:5: note: declared here 221 | int ARKStepSetFixedStep(void* arkode_mem, sunrealtype hfixed); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:256:22: warning: ‘int ARKStepSetOrder(void*, int)’ is deprecated: use ARKodeSetOrder instead [-Wdeprecated-declarations] 256 | if (ARKStepSetOrder(arkode_mem, order) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:136:5: note: declared here 136 | int ARKStepSetOrder(void* arkode_mem, int maxord); | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:272:28: warning: ‘int ARKStepSetCFLFraction(void*, sunrealtype)’ is deprecated: use ARKodeSetCFLFraction instead [-Wdeprecated-declarations] 272 | if (ARKStepSetCFLFraction(arkode_mem, cfl_frac) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:158:5: note: declared here 158 | int ARKStepSetCFLFraction(void* arkode_mem, sunrealtype cfl_frac); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:300:32: warning: ‘int ARKStepSetAdaptController(void*, SUNAdaptController)’ is deprecated: use ARKodeSetAdaptController instead [-Wdeprecated-declarations] 300 | if (ARKStepSetAdaptController(arkode_mem, controller) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:154:5: note: declared here 154 | int ARKStepSetAdaptController(void* arkode_mem, SUNAdaptController C); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:304:37: warning: ‘int ARKStepSetAdaptivityAdjustment(void*, int)’ is deprecated: use ARKodeSetAdaptivityAdjustment instead [-Wdeprecated-declarations] 304 | if (ARKStepSetAdaptivityAdjustment(arkode_mem, 0) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:156:5: note: declared here 156 | int ARKStepSetAdaptivityAdjustment(void* arkode_mem, int adjust); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:368:28: warning: ‘int ARKStepSVtolerances(void*, sunrealtype, N_Vector)’ is deprecated: use ARKodeSVtolerances instead [-Wdeprecated-declarations] 368 | if (ARKStepSVtolerances(arkode_mem, reltol, abstolvec) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:115:5: note: declared here 115 | int ARKStepSVtolerances(void* arkode_mem, sunrealtype reltol, N_Vector abstol); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:374:28: warning: ‘int ARKStepSStolerances(void*, sunrealtype, sunrealtype)’ is deprecated: use ARKodeSStolerances instead [-Wdeprecated-declarations] 374 | if (ARKStepSStolerances(arkode_mem, reltol, abstol) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:113:5: note: declared here 113 | int ARKStepSStolerances(void* arkode_mem, sunrealtype reltol, sunrealtype abstol); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:379:28: warning: ‘int ARKStepSetMaxNumSteps(void*, long int)’ is deprecated: use ARKodeSetMaxNumSteps instead [-Wdeprecated-declarations] 379 | if (ARKStepSetMaxNumSteps(arkode_mem, mxsteps) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:205:5: note: declared here 205 | int ARKStepSetMaxNumSteps(void* arkode_mem, long int mxsteps); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:384:26: warning: ‘int ARKStepSetMaxStep(void*, sunrealtype)’ is deprecated: use ARKodeSetMaxStep instead [-Wdeprecated-declarations] 384 | if (ARKStepSetMaxStep(arkode_mem, max_timestep) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:213:5: note: declared here 213 | int ARKStepSetMaxStep(void* arkode_mem, sunrealtype hmax); | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:390:26: warning: ‘int ARKStepSetMinStep(void*, sunrealtype)’ is deprecated: use ARKodeSetMinStep instead [-Wdeprecated-declarations] 390 | if (ARKStepSetMinStep(arkode_mem, min_timestep) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:211:5: note: declared here 211 | int ARKStepSetMinStep(void* arkode_mem, sunrealtype hmin); | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:396:27: warning: ‘int ARKStepSetInitStep(void*, sunrealtype)’ is deprecated: use ARKodeSetInitStep instead [-Wdeprecated-declarations] 396 | if (ARKStepSetInitStep(arkode_mem, start_timestep) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:209:5: note: declared here 209 | int ARKStepSetInitStep(void* arkode_mem, sunrealtype hin); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:408:36: warning: ‘int ARKStepSetNonlinearSolver(void*, SUNNonlinearSolver)’ is deprecated: use ARKodeSetNonlinearSolver instead [-Wdeprecated-declarations] 408 | if (ARKStepSetNonlinearSolver(arkode_mem, nonlinear_solver) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:144:5: note: declared here 144 | int ARKStepSetNonlinearSolver(void* arkode_mem, SUNNonlinearSolver NLS); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:420:33: warning: ‘int ARKStepSetLinearSolver(void*, SUNLinearSolver, SUNMatrix)’ is deprecated: use ARKodeSetLinearSolver instead [-Wdeprecated-declarations] 420 | if (ARKStepSetLinearSolver(arkode_mem, sun_solver, nullptr) != ARKLS_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:125:5: note: declared here 125 | int ARKStepSetLinearSolver(void* arkode_mem, SUNLinearSolver LS, SUNMatrix A); | ^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:429:39: warning: ‘int ARKStepSetPreconditioner(void*, ARKLsPrecSetupFn, ARKLsPrecSolveFn)’ is deprecated: use ARKodeSetPreconditioner instead [-Wdeprecated-declarations] 429 | if (ARKStepSetPreconditioner(arkode_mem, nullptr, arkode_pre) | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:253:5: note: declared here 253 | int ARKStepSetPreconditioner(void* arkode_mem, ARKLsPrecSetupFn psetup, | ^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:483:29: warning: ‘int ARKStepSetJacTimes(void*, ARKLsJacTimesSetupFn, ARKLsJacTimesVecFn)’ is deprecated: use ARKodeSetJacTimes instead [-Wdeprecated-declarations] 483 | if (ARKStepSetJacTimes(arkode_mem, nullptr, arkode_jac) != ARKLS_SUCCESS) { | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:259:5: note: declared here 259 | int ARKStepSetJacTimes(void* arkode_mem, ARKLsJacTimesSetupFn jtsetup, | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:493:32: warning: ‘int ARKStepSetOptimalParams(void*)’ is deprecated: adjust parameters individually instead [-Wdeprecated-declarations] 493 | if (ARKStepSetOptimalParams(arkode_mem) != ARK_SUCCESS) { | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:134:5: note: declared here 134 | int ARKStepSetOptimalParams(void* arkode_mem); | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In member function ‘virtual int ArkodeSolver::run()’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:526:23: warning: ‘int ARKStepGetNumSteps(void*, long int*)’ is deprecated: use ARKodeGetNumSteps instead [-Wdeprecated-declarations] 526 | ARKStepGetNumSteps(arkode_mem, &temp_long_int); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:290:5: note: declared here 290 | int ARKStepGetNumSteps(void* arkode_mem, long int* nsteps); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:532:35: warning: ‘int ARKStepGetNumNonlinSolvIters(void*, long int*)’ is deprecated: use ARKodeGetNumNonlinSolvIters instead [-Wdeprecated-declarations] 532 | ARKStepGetNumNonlinSolvIters(arkode_mem, &temp_long_int); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:337:5: note: declared here 337 | int ARKStepGetNumNonlinSolvIters(void* arkode_mem, long int* nniters); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:534:29: warning: ‘int ARKStepGetNumPrecEvals(void*, long int*)’ is deprecated: use ARKodeGetNumPrecEvals instead [-Wdeprecated-declarations] 534 | ARKStepGetNumPrecEvals(arkode_mem, &temp_long_int); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:357:5: note: declared here 357 | int ARKStepGetNumPrecEvals(void* arkode_mem, long int* npevals); | ^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:536:28: warning: ‘int ARKStepGetNumLinIters(void*, long int*)’ is deprecated: use ARKodeGetNumLinIters instead [-Wdeprecated-declarations] 536 | ARKStepGetNumLinIters(arkode_mem, &temp_long_int); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:361:5: note: declared here 361 | int ARKStepGetNumLinIters(void* arkode_mem, long int* nliters); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In member function ‘BoutReal ArkodeSolver::run(BoutReal)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:574:25: warning: ‘int ARKStepEvolve(void*, sunrealtype, N_Vector, sunrealtype*, int)’ is deprecated: use ARKodeEvolve instead [-Wdeprecated-declarations] 574 | flag = ARKStepEvolve(arkode_mem, tout, uvec, &simtime, ARK_NORMAL); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:269:5: note: declared here 269 | int ARKStepEvolve(void* arkode_mem, sunrealtype tout, N_Vector yout, | ^~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:578:26: warning: ‘int ARKStepGetCurrentTime(void*, sunrealtype*)’ is deprecated: use ARKodeGetCurrentTime instead [-Wdeprecated-declarations] 578 | ARKStepGetCurrentTime(arkode_mem, &internal_time); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:298:5: note: declared here 298 | int ARKStepGetCurrentTime(void* arkode_mem, sunrealtype* tcur); | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:582:27: warning: ‘int ARKStepEvolve(void*, sunrealtype, N_Vector, sunrealtype*, int)’ is deprecated: use ARKodeEvolve instead [-Wdeprecated-declarations] 582 | flag = ARKStepEvolve(arkode_mem, tout, uvec, &internal_time, ARK_ONE_STEP); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:269:5: note: declared here 269 | int ARKStepEvolve(void* arkode_mem, sunrealtype tout, N_Vector yout, | ^~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:594:25: warning: ‘int ARKStepGetDky(void*, sunrealtype, int, N_Vector)’ is deprecated: use ARKodeGetDky instead [-Wdeprecated-declarations] 594 | flag = ARKStepGetDky(arkode_mem, tout, 0, uvec); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:272:5: note: declared here 272 | int ARKStepGetDky(void* arkode_mem, sunrealtype t, int k, N_Vector dky); | ^~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In member function ‘void ArkodeSolver::rhs_e(BoutReal, BoutReal*, BoutReal*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:624:21: warning: ‘int ARKStepGetLastStep(void*, sunrealtype*)’ is deprecated: use ARKodeGetLastStep instead [-Wdeprecated-declarations] 624 | ARKStepGetLastStep(arkode_mem, &hcur); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:294:5: note: declared here 294 | int ARKStepGetLastStep(void* arkode_mem, sunrealtype* hlast); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In member function ‘void ArkodeSolver::rhs_i(BoutReal, BoutReal*, BoutReal*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:641:21: warning: ‘int ARKStepGetLastStep(void*, sunrealtype*)’ is deprecated: use ARKodeGetLastStep instead [-Wdeprecated-declarations] 641 | ARKStepGetLastStep(arkode_mem, &hcur); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:294:5: note: declared here 294 | int ARKStepGetLastStep(void* arkode_mem, sunrealtype* hlast); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx: In member function ‘void ArkodeSolver::rhs(BoutReal, BoutReal*, BoutReal*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/arkode/arkode.cxx:654:21: warning: ‘int ARKStepGetLastStep(void*, sunrealtype*)’ is deprecated: use ARKodeGetLastStep instead [-Wdeprecated-declarations] 654 | ARKStepGetLastStep(arkode_mem, &hcur); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/include/mpich-aarch64/arkode/arkode_arkstep.h:294:5: note: declared here 294 | int ARKStepGetLastStep(void* arkode_mem, sunrealtype* hlast); | ^~~~~~~~~~~~~~~~~~ [ 65%] Building CXX object CMakeFiles/bout++.dir/src/solver/impls/euler/euler.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/solver/impls/euler/euler.cxx.o -MF CMakeFiles/bout++.dir/src/solver/impls/euler/euler.cxx.o.d -o CMakeFiles/bout++.dir/src/solver/impls/euler/euler.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/euler/euler.cxx [ 65%] Building CXX object CMakeFiles/bout++.dir/src/solver/impls/ida/ida.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/solver/impls/ida/ida.cxx.o -MF CMakeFiles/bout++.dir/src/solver/impls/ida/ida.cxx.o.d -o CMakeFiles/bout++.dir/src/solver/impls/ida/ida.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/ida/ida.cxx [ 68%] Building CXX object CMakeFiles/bout++.dir/src/solver/impls/imex-bdf2/imex-bdf2.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/solver/impls/imex-bdf2/imex-bdf2.cxx.o -MF CMakeFiles/bout++.dir/src/solver/impls/imex-bdf2/imex-bdf2.cxx.o.d -o CMakeFiles/bout++.dir/src/solver/impls/imex-bdf2/imex-bdf2.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/imex-bdf2/imex-bdf2.cxx [ 68%] Building CXX object CMakeFiles/bout++.dir/src/solver/impls/petsc/petsc.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/solver/impls/petsc/petsc.cxx.o -MF CMakeFiles/bout++.dir/src/solver/impls/petsc/petsc.cxx.o.d -o CMakeFiles/bout++.dir/src/solver/impls/petsc/petsc.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/petsc/petsc.cxx [ 68%] Building CXX object CMakeFiles/bout++.dir/src/solver/impls/power/power.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/solver/impls/power/power.cxx.o -MF CMakeFiles/bout++.dir/src/solver/impls/power/power.cxx.o.d -o CMakeFiles/bout++.dir/src/solver/impls/power/power.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/power/power.cxx [ 68%] Building CXX object CMakeFiles/bout++.dir/src/solver/impls/pvode/pvode.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g 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CMakeFiles/bout++.dir/src/sys/boutexception.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/boutexception.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutexception.cxx [ 80%] Building CXX object CMakeFiles/bout++.dir/src/sys/derivs.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/derivs.cxx.o -MF CMakeFiles/bout++.dir/src/sys/derivs.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/derivs.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/derivs.cxx [ 80%] Building CXX object CMakeFiles/bout++.dir/src/sys/expressionparser.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/expressionparser.cxx.o -MF CMakeFiles/bout++.dir/src/sys/expressionparser.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/expressionparser.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/expressionparser.cxx [ 82%] Building CXX object CMakeFiles/bout++.dir/src/sys/generator_context.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/generator_context.cxx.o -MF CMakeFiles/bout++.dir/src/sys/generator_context.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/generator_context.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/generator_context.cxx /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/expressionparser.cxx: In member function ‘virtual double FieldGenerator::generate(const bout::generator::Context&)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/expressionparser.cxx:43:18: warning: ‘virtual double FieldGenerator::generate(BoutReal, BoutReal, BoutReal, BoutReal)’ is deprecated: This will be removed in a future version. Implementations should override the Context version of this function. [-Wdeprecated-declarations] 43 | return generate(ctx.x(), ctx.y(), ctx.z(), ctx.t()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/expressionparser.cxx:25: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sys/expressionparser.hxx:69:3: note: declared here 69 | generate(BoutReal x, BoutReal y, BoutReal z, BoutReal t) { | ^~~~~~~~ [ 82%] Building CXX object CMakeFiles/bout++.dir/src/sys/hyprelib.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 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-fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/options.cxx.o -MF CMakeFiles/bout++.dir/src/sys/options.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/options.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options.cxx [ 85%] Building CXX object CMakeFiles/bout++.dir/src/sys/options/options_ini.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/options/options_ini.cxx.o -MF CMakeFiles/bout++.dir/src/sys/options/options_ini.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/options/options_ini.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_ini.cxx [ 85%] Building CXX object CMakeFiles/bout++.dir/src/sys/options/options_io.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/options/options_io.cxx.o -MF CMakeFiles/bout++.dir/src/sys/options/options_io.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/options/options_io.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx [ 85%] Building CXX object CMakeFiles/bout++.dir/src/sys/options/options_netcdf.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/options/options_netcdf.cxx.o -MF CMakeFiles/bout++.dir/src/sys/options/options_netcdf.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/options/options_netcdf.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx [ 85%] Building CXX object CMakeFiles/bout++.dir/src/sys/options/options_adios.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/options/options_adios.cxx.o -MF CMakeFiles/bout++.dir/src/sys/options/options_adios.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/options/options_adios.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_adios.cxx [ 88%] Building CXX object CMakeFiles/bout++.dir/src/sys/optionsreader.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/optionsreader.cxx.o -MF CMakeFiles/bout++.dir/src/sys/optionsreader.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/optionsreader.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/optionsreader.cxx In file included from /usr/include/mpich-aarch64/ncFile.h:2, from /usr/include/mpich-aarch64/netcdf:16, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.hxx:22, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:7: /usr/include/mpich-aarch64/ncGroup.h:18:14: warning: ‘netCDF::file_id’ defined but not used [-Wunused-variable] 18 | static int file_id; | ^~~~~~~ In file included from /usr/include/mpich-aarch64/ncFile.h:2, from /usr/include/mpich-aarch64/netcdf:16, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.hxx:22, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:5: /usr/include/mpich-aarch64/ncGroup.h:18:14: warning: ‘netCDF::file_id’ defined but not used [-Wunused-variable] 18 | static int file_id; | ^~~~~~~ [ 88%] Building CXX object CMakeFiles/bout++.dir/src/sys/output.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/output.cxx.o -MF CMakeFiles/bout++.dir/src/sys/output.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/output.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/output.cxx [ 88%] Building CXX object CMakeFiles/bout++.dir/src/sys/petsclib.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -MD -MT CMakeFiles/bout++.dir/src/sys/petsclib.cxx.o -MF CMakeFiles/bout++.dir/src/sys/petsclib.cxx.o.d -o CMakeFiles/bout++.dir/src/sys/petsclib.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/petsclib.cxx [ 88%] Building CXX object CMakeFiles/bout++.dir/src/sys/range.cxx.o /usr/lib64/mpich/bin/mpicxx -DBOUT_FLAGS_STRING=" -Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" -DCHECK=2 -DFMT_SHARED -Dbout___EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS 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CMakeFiles/bout++.dir/src/sys/optionsreader.cxx.o CMakeFiles/bout++.dir/src/sys/output.cxx.o CMakeFiles/bout++.dir/src/sys/petsclib.cxx.o CMakeFiles/bout++.dir/src/sys/range.cxx.o CMakeFiles/bout++.dir/src/sys/slepclib.cxx.o CMakeFiles/bout++.dir/src/sys/timer.cxx.o CMakeFiles/bout++.dir/src/sys/type_name.cxx.o CMakeFiles/bout++.dir/src/sys/utils.cxx.o "CMakeFiles/bout++.dir/bout++-time.cxx.o" -Wl,-rpath,/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/lib: /usr/lib64/mpich/lib/libpetsc.so /usr/lib64/libfmt.so.11.0.2 lib/libpvode.so.1.0.0 lib/libpvpre.so.1.0.0 /usr/lib64/libnetcdf_c++4.so /usr/lib64/libfftw3.so /usr/lib64/libflexiblas.so -lm -ldl -ldl /usr/lib64/mpich/lib/libpetsc.so /usr/lib64/mpich/lib/libhdf5.so /usr/lib64/libnetcdf.so /usr/lib64/mpich/lib/libsundials_nvecparallel.so.7.1.1 /usr/lib64/mpich/lib/libsundials_cvode.so.7.1.1 /usr/lib64/mpich/lib/libsundials_ida.sIn member function ‘__ct ’, inlined from ‘_Construct’ at /usr/include/c++/14/bits/stl_construct.h:119:7, inlined from ‘construct’ at /usr/include/c++/14/bits/alloc_traits.h:694:19, inlined from ‘__ct ’ at /usr/include/c++/14/bits/shared_ptr_base.h:607:39, inlined from ‘__ct ’ at /usr/include/c++/14/bits/shared_ptr_base.h:969:16, inlined from ‘__ct ’ at /usr/include/c++/14/bits/shared_ptr_base.h:1713:14, inlined from ‘__ct ’ at /usr/include/c++/14/bits/shared_ptr.h:463:59, inlined from ‘make_shared’ at /usr/include/c++/14/bits/shared_ptr.h:1008:39, inlined from ‘get’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/array.hxx:428:38, inlined from ‘reallocate’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/array.hxx:226:14, inlined from ‘__ct_base ’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/invert/laplace/impls/spt/spt.cxx:68:21: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/array.hxx:75:12: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 75 | data = new T[len]; | ^ /usr/include/c++/14/new: In member function ‘__ct_base ’: /usr/include/c++/14/new:133:26: note: in a call to allocation function ‘operator new []’ declared here 133 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ o.7.1.1 /usr/lib64/mpich/lib/libsundials_arkode.so.6.1.1 /usr/lib64/mpich/lib/libsundials_core.so.7.1.1 /usr/bin/cmake -E cmake_symlink_library lib/libbout++.so.5.1.0 lib/libbout++.so.5.1.0 lib/libbout++.so gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [ 94%] Built target bout++ /usr/bin/gmake -f tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/build.make tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [ 97%] Generating boutcpp.pxd [ 94%] Generating boutpp.pyx [ 94%] Generating resolve_enum.pxd [ 97%] Generating helper.cxx cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E env PYTHONPATH=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/..: /usr/bin/python3.13 generate.py resolve_enum.pxd.jinja /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/resolve_enum.pxd cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E env PYTHONPATH=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/..: /usr/bin/python3.13 generate.py boutpp.pyx.jinja /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/boutpp.pyx cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E env PYTHONPATH=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/..: /usr/bin/python3.13 generate.py boutcpp.pxd.jinja /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/boutcpp.pxd cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E env PYTHONPATH=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/..: /usr/bin/python3.13 generate.py helper.cxx.jinja /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.cxx [ 97%] Generating helper.h cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E make_directory /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build && /usr/bin/cmake -E env PYTHONPATH=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/..: /usr/bin/python3.13 generate.py helper.h.jinja /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h [ 97%] Generating libboutpp.cpp cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build && /usr/bin/cmake -E copy boutpp.pyx libboutpp.pyx cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build && /usr/bin/python3.13 -m cython libboutpp.pyx --cplus -3 -X binding=True -X embedsignature=True warning: resolve_enum.pxd:49:21: 'deflt' redeclared warning: resolve_enum.pxd:189:24: 'Standard' redeclared warning: resolve_enum.pxd:223:15: 'Standard' redeclared performance hint: libboutpp.pyx:2065:5: Exception check on 'callback' will always require the GIL to be acquired. Possible solutions: 1. Declare 'callback' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions. 2. Use an 'int' return type on 'callback' to allow an error code to be returned. cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' /usr/bin/gmake -f tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/build.make tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [ 97%] Building CXX object tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/helper.cxx.o [ 97%] Building CXX object tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/boutexception_helper.cxx.o [100%] Building CXX object tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/libboutpp.cpp.o cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build && /usr/lib64/mpich/bin/mpicxx -DCHECK=2 -DFMT_SHARED -Dboutpp_cpython_313_aarch64_linux_gnu_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build -I/usr/include/python3.13 -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/libboutpp.cpp.o -MF CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/libboutpp.cpp.o.d -o CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/libboutpp.cpp.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build && /usr/lib64/mpich/bin/mpicxx -DCHECK=2 -DFMT_SHARED -Dboutpp_cpython_313_aarch64_linux_gnu_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build -I/usr/include/python3.13 -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/helper.cxx.o -MF CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/helper.cxx.o.d -o CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/helper.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.cxx cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build && /usr/lib64/mpich/bin/mpicxx -DCHECK=2 -DFMT_SHARED -Dboutpp_cpython_313_aarch64_linux_gnu_EXPORTS -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build -I/usr/include/python3.13 -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/include -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include/pvode -I/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/externalpackages/PVODE/include -isystem /usr/include/mpich-aarch64/petsc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -fPIC -MD -MT tools/pylib/_boutpp_build/CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/boutexception_helper.cxx.o -MF CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/boutexception_helper.cxx.o.d -o CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/boutexception_helper.cxx.o -c /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/boutexception_helper.cxx In file included from /usr/include/numpy/ndarraytypes.h:1929, from /usr/include/numpy/ndarrayobject.h:12, from /usr/include/numpy/arrayobject.h:5, from /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:1268: /usr/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:40864:46: warning: ‘__pyx_obj_9libboutpp_Vector2D* __pyx_f_9libboutpp_v2dFromObj(Vector2D)’ defined but not used [-Wunused-function] 40864 | static struct __pyx_obj_9libboutpp_Vector2D *__pyx_f_9libboutpp_v2dFromObj(Vector2D __pyx_v_i) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp: In function ‘__pyx_f_12resolve_enum_resolve_cell_loc(_object*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:9290:10: warning: ‘__pyx_r’ may be used uninitialized [-Wmaybe-uninitialized] 9290 | return __pyx_r; | ^~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:8933:12: note: ‘__pyx_r’ was declared here 8933 | CELL_LOC __pyx_r; | ^~~~~~~ In function ‘__pyx_pf_9libboutpp_54bracket(_object*, __pyx_obj_9libboutpp_Field3D*, __pyx_obj_9libboutpp_Field3D*, _object*, _object*)’, inlined from ‘__pyx_pw_9libboutpp_55bracket(_object*, _object* const*, long, _object*)’ at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:64913:42: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:65007:65: warning: ‘__pyx_r’ may be used uninitialized [-Wmaybe-uninitialized] 65007 | __pyx_t_1 = ((PyObject *)__pyx_f_9libboutpp_f3dFromObj(bracket((__pyx_v_a->cobj[0]), (__pyx_v_b->cobj[0]), __pyx_v_method_, __pyx_v_outloc_))); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 2990, __pyx_L1_error) | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp: In function ‘__pyx_pw_9libboutpp_55bracket(_object*, _object* const*, long, _object*)’: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:10801:18: note: ‘__pyx_r’ was declared here 10801 | BRACKET_METHOD __pyx_r; | ^~~~~~~ [100%] Linking CXX shared library libboutpp.cpython-313-aarch64-linux-gnu.so cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build && /usr/bin/cmake -E cmake_link_script CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/link.txt --verbose=1 /usr/lib64/mpich/bin/mpicxx -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -g -DNDEBUG -Wl,--dependency-file=CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/link.d -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -shared -Wl,-soname,libboutpp.cpython-313-aarch64-linux-gnu.so -o libboutpp.cpython-313-aarch64-linux-gnu.so "CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/libboutpp.cpp.o" "CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/helper.cxx.o" "CMakeFiles/boutpp.cpython-313-aarch64-linux-gnu.dir/boutexception_helper.cxx.o" -Wl,-rpath,/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/lib: ../../../lib/libbout++.so.5.1.0 /usr/lib64/mpich/lib/libpetsc.so /usr/lib64/mpich/lib/libpetsc.so /usr/lib64/mpich/lib/libhdf5.so /usr/lib64/libfmt.so.11.0.2 ../../../lib/libpvode.so.1.0.0 ../../../lib/libpvpre.so.1.0.0 /usr/lib64/libnetcdf_c++4.so /usr/lib64/libnetcdf.so /usr/lib64/libfftw3.so /usr/lib64/libflexiblas.so -lm -ldl /usr/lib64/mpich/lib/libsundials_nvecparallel.so.7.1.1 /usr/lib64/mpich/lib/libsundials_cvode.so.7.1.1 /usr/lib64/mpich/lib/libsundials_ida.so.7.1.1 /usr/lib64/mpich/lib/libsundials_arkode.so.6.1.1 /usr/lib64/mpich/lib/libsundials_core.so.7.1.1 -ldl gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [100%] Built target boutpp.cpython-313-aarch64-linux-gnu /usr/bin/gmake -f tools/pylib/_boutpp_build/CMakeFiles/boutpp.dir/build.make tools/pylib/_boutpp_build/CMakeFiles/boutpp.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/CMakeFiles/boutpp.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' /usr/bin/gmake -f tools/pylib/_boutpp_build/CMakeFiles/boutpp.dir/build.make tools/pylib/_boutpp_build/CMakeFiles/boutpp.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [100%] Building python interface cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build && /usr/bin/cmake -E copy /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpython-313-aarch64-linux-gnu.so /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/../boutpp/libboutpp.cpython-313-aarch64-linux-gnu.so cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build && /usr/bin/cmake -E copy /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/tools/pylib/_boutpp_build/boutpp.py /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/../boutpp/__init__.py gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [100%] Built target boutpp gmake[1]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/CMakeFiles 0 + PYPA= + LDPA=/usr/lib64/mpich/lib ++ pwd + export PYTHONPATH=:/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/ + PYTHONPATH=:/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/ ++ pwd + export LD_LIBRARY_PATH=/usr/lib64/mpich/lib:/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/lib/ + LD_LIBRARY_PATH=/usr/lib64/mpich/lib:/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/lib/ + /usr/bin/cmake --build build_mpich/manual -j4 --verbose Change Dir: '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/manual' Run Build Command(s): /usr/bin/cmake -E env VERBOSE=1 /usr/bin/gmake -f Makefile -j4 cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich && /usr/bin/cmake -S/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f -B/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich --check-build-system CMakeFiles/Makefile.cmake 0 cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich && /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/CMakeFiles /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/manual//CMakeFiles/progress.marks cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich && /usr/bin/gmake -f CMakeFiles/Makefile2 manual/all gmake[1]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' /usr/bin/gmake -f manual/CMakeFiles/sphinx-html.dir/build.make manual/CMakeFiles/sphinx-html.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/manual /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/manual/CMakeFiles/sphinx-html.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' /usr/bin/gmake -f manual/CMakeFiles/sphinx-html.dir/build.make manual/CMakeFiles/sphinx-html.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [100%] Generating HTML documentation with Sphinx in /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/manual/docs cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/manual && /usr/bin/sphinx-build -b html /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/manual/docs Running Sphinx v7.3.7 breathe module not installed recommonmark module not installed making output directory... done building [mo]: targets for 0 po files that are out of date writing output... building [html]: targets for 47 source files that are out of date updating environment: [new config] 47 added, 0 changed, 0 removed reading sources... [ 2%] _apidoc/boutdata reading sources... [ 4%] _apidoc/boutpp reading sources... [ 6%] _apidoc/boututils No mlab available reading sources... [ 9%] _apidoc/zoidberg reading sources... [ 11%] api_reference reading sources... [ 13%] developer_docs/code_layout reading sources... [ 15%] developer_docs/contributing reading sources... [ 17%] developer_docs/data_types reading sources... [ 19%] developer_docs/file_io reading sources... [ 21%] developer_docs/git_basics reading sources... [ 23%] developer_docs/mesh reading sources... [ 26%] developer_docs/natural_language reading sources... [ 28%] developer_docs/performance_profiling reading sources... [ 30%] developer_docs/petsc_interface reading sources... [ 32%] index reading sources... [ 34%] user_docs/BOUT_Gradperp_op reading sources... [ 36%] user_docs/adios2 reading sources... [ 38%] user_docs/advanced_install reading sources... [ 40%] user_docs/algebraic_operators reading sources... [ 43%] user_docs/boundary_options reading sources... [ 45%] user_docs/bout_functions_for_physics reading sources... [ 47%] user_docs/bout_options reading sources... [ 49%] user_docs/coordinates reading sources... [ 51%] user_docs/differential_operators reading sources... [ 53%] user_docs/eigenvalue_solver reading sources... [ 55%] user_docs/gpu_support reading sources... [ 57%] user_docs/input_grids reading sources... [ 60%] user_docs/installing reading sources... [ 62%] user_docs/introduction reading sources... [ 64%] user_docs/invertable_operator reading sources... [ 66%] user_docs/laplacian reading sources... [ 68%] user_docs/makefiles reading sources... [ 70%] user_docs/new_in_v5 reading sources... [ 72%] user_docs/nonlocal reading sources... [ 74%] user_docs/output_and_post reading sources... [ 77%] user_docs/parallel-transforms reading sources... [ 79%] user_docs/petsc reading sources... [ 81%] user_docs/physics_models reading sources... [ 83%] user_docs/preconditioning reading sources... [ 85%] user_docs/python reading sources... [ 87%] user_docs/python_boutpp reading sources... [ 89%] user_docs/quickstart reading sources... [ 91%] user_docs/running_bout reading sources... [ 94%] user_docs/staggered_grids reading sources... [ 96%] user_docs/testing reading sources... [ 98%] user_docs/time_integration reading sources... [100%] user_docs/variable_init /usr/lib/python3.13/site-packages/boutdata/collect.py:docstring of boutdata.collect:1: WARNING: duplicate object description of boutdata.collect, other instance in _apidoc/boutdata, use :no-index: for one of them WARNING: autodoc: failed to import module 'mayavi2' from module 'boutdata'; the following exception was raised: No module named 'enthought' /usr/lib/python3.13/site-packages/boutdata/restart.py:docstring of boutdata.restart.shift_v3_to_v4:5: ERROR: Unexpected indentation. /usr/lib/python3.13/site-packages/boutdata/restart.py:docstring of boutdata.restart.shift_v3_to_v4:6: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/lib/python3.13/site-packages/boutdata/restart.py:docstring of boutdata.restart.normal:56: WARNING: Footnote [1] is not referenced. docstring of libboutpp.PhysicsModel:14: ERROR: Unexpected indentation. /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/boutpp/__init__.py:docstring of libboutpp.create3D:3: ERROR: Unexpected indentation. WARNING: autodoc: failed to import module 'analyse_equil_2' from module 'boututils'; the following exception was raised: No module named 'crosslines' WARNING: autodoc: failed to import module 'anim' from module 'boututils'; the following exception was raised: No module named 'tvtk' WARNING: autodoc: failed to import module 'boutgrid' from module 'boututils'; the following exception was raised: No module named 'tvtk' /usr/lib/python3.13/site-packages/boututils/calculus.py:docstring of boututils.calculus.deriv2D:14: ERROR: Unexpected indentation. WARNING: autodoc: failed to import module 'crosslines' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'efit_analyzer' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'fft_deriv' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'int_func' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'mode_structure' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'moment_xyzt' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'radial_grid' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'spectrogram' from module 'boututils'; the following exception was raised: cannot import name 'pi' from 'scipy' (/usr/lib64/python3.13/site-packages/scipy/__init__.py) WARNING: autodoc: failed to import module 'surface_average' from module 'boututils'; the following exception was raised: No module named 'past' WARNING: autodoc: failed to import module 'volume_integral' from module 'boututils'; the following exception was raised: No module named 'past' /usr/lib/python3.13/site-packages/zoidberg/field.py:docstring of zoidberg.field.DommaschkPotentials:3: ERROR: Unexpected indentation. /usr/lib/python3.13/site-packages/zoidberg/field.py:docstring of zoidberg.field.MagneticField.attributes:1: WARNING: duplicate object description of zoidberg.field.MagneticField.attributes, other instance in _apidoc/zoidberg, use :no-index: for one of them /usr/lib/python3.13/site-packages/zoidberg/field.py:docstring of zoidberg.field.MagneticField.boundary:1: WARNING: duplicate object description of zoidberg.field.MagneticField.boundary, other instance in _apidoc/zoidberg, use :no-index: for one of them /usr/lib/python3.13/site-packages/zoidberg/field.py:docstring of zoidberg.field.RotatingEllipse:3: ERROR: Unexpected indentation. /usr/lib/python3.13/site-packages/zoidberg/field.py:docstring of zoidberg.field.RotatingEllipse.coil:3: ERROR: Unexpected indentation. /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/api_reference.rst:4: WARNING: toctree glob pattern '_breathe_autogen/*' didn't match any documents /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/file_io.rst:114: ERROR: Unknown interpreted text role "py". /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/performance_profiling.rst:85: WARNING: Inline literal start-string without end-string. /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/boundary_options.rst:120: WARNING: Footnote [#] is not referenced. /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/installing.rst:400: WARNING: Title underline too short. Working with an active ``conda`` environment ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/installing.rst:400: WARNING: Title underline too short. Working with an active ``conda`` environment ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/installing.rst:406: ERROR: Unexpected indentation. /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/installing.rst:407: WARNING: Block quote ends without a blank line; unexpected unindent. /usr/lib/python3.13/site-packages/boututils/__init__.py:docstring of boututils:1: WARNING: duplicate object description of boututils, other instance in _apidoc/boututils, use :no-index: for one of them /usr/lib/python3.13/site-packages/boutdata/__init__.py:docstring of boutdata:1: WARNING: duplicate object description of boutdata, other instance in _apidoc/boutdata, use :no-index: for one of them /usr/lib/python3.13/site-packages/boutdata/__init__.py:docstring of boutdata.collect.attributes:1: WARNING: duplicate object description of boutdata.attributes, other instance in _apidoc/boutdata, use :no-index: for one of them /usr/lib/python3.13/site-packages/boutdata/__init__.py:docstring of boutdata.collect.collect:1: WARNING: duplicate object description of boutdata.collect, other instance in _apidoc/boutdata, use :no-index: for one of them /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/running_bout.rst:462: WARNING: Literal block expected; none found. looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... WARNING: unsupported theme option 'repository_url' given WARNING: unsupported theme option 'repository_branch' given WARNING: unsupported theme option 'path_to_docs' given WARNING: unsupported theme option 'use_edit_page_button' given WARNING: unsupported theme option 'use_repository_button' given done WARNING: unsupported theme option 'use_issues_button' given WARNING: unsupported theme option 'home_page_in_toc' given copying assets... copying static files... done copying extra files... done done writing output... [ 2%] _apidoc/boutdata writing output... [ 4%] _apidoc/boutpp writing output... [ 6%] _apidoc/boututils writing output... [ 9%] _apidoc/zoidberg writing output... [ 11%] api_reference writing output... [ 13%] developer_docs/code_layout writing output... [ 15%] developer_docs/contributing writing output... [ 17%] developer_docs/data_types writing output... [ 19%] developer_docs/file_io writing output... [ 21%] developer_docs/git_basics writing output... [ 23%] developer_docs/mesh writing output... [ 26%] developer_docs/natural_language writing output... [ 28%] developer_docs/performance_profiling writing output... [ 30%] developer_docs/petsc_interface writing output... [ 32%] index writing output... [ 34%] user_docs/BOUT_Gradperp_op writing output... [ 36%] user_docs/adios2 writing output... [ 38%] user_docs/advanced_install writing output... [ 40%] user_docs/algebraic_operators writing output... [ 43%] user_docs/boundary_options writing output... [ 45%] user_docs/bout_functions_for_physics writing output... [ 47%] user_docs/bout_options writing output... [ 49%] user_docs/coordinates writing output... [ 51%] user_docs/differential_operators writing output... [ 53%] user_docs/eigenvalue_solver writing output... [ 55%] user_docs/gpu_support writing output... [ 57%] user_docs/input_grids writing output... [ 60%] user_docs/installing writing output... [ 62%] user_docs/introduction writing output... [ 64%] user_docs/invertable_operator writing output... [ 66%] user_docs/laplacian writing output... [ 68%] user_docs/makefiles writing output... [ 70%] user_docs/new_in_v5 writing output... [ 72%] user_docs/nonlocal writing output... [ 74%] user_docs/output_and_post writing output... [ 77%] user_docs/parallel-transforms writing output... [ 79%] user_docs/petsc writing output... [ 81%] user_docs/physics_models writing output... [ 83%] user_docs/preconditioning writing output... [ 85%] user_docs/python writing output... [ 87%] user_docs/python_boutpp writing output... [ 89%] user_docs/quickstart writing output... [ 91%] user_docs/running_bout writing output... [ 94%] user_docs/staggered_grids writing output... [ 96%] user_docs/testing writing output... [ 98%] user_docs/time_integration writing output... [100%] user_docs/variable_init /usr/lib/python3.13/site-packages/boutdata/restart.py:docstring of boutdata.restart.normal:14: WARNING: Unparseable C++ cross-reference: 'numpy.random.Generator.normal' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 5] numpy.random.Generator.normal -----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 5] numpy.random.Generator.normal -----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 5] numpy.random.Generator.normal -----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 5] numpy.random.Generator.normal -----^ /usr/lib/python3.13/site-packages/boutdata/restart.py:docstring of boutdata.restart.normal:14: WARNING: Unparseable C++ cross-reference: 'numpy.random.Generator' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected end of definition. [error at 5] numpy.random.Generator -----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expecting "(" in parameters-and-qualifiers. [error at 5] numpy.random.Generator -----^ If the function has a return type: Error in declarator or parameters-and-qualifiers If pointer to member declarator: Invalid C++ declaration: Expected identifier in nested name. [error at 5] numpy.random.Generator -----^ If declarator-id: Invalid C++ declaration: Expected identifier in nested name. [error at 5] numpy.random.Generator -----^ /usr/lib/python3.13/site-packages/boutdata/restart.py:docstring of boutdata.restart.normal:14: WARNING: undefined label: 'random-quick-start' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:81: WARNING: unknown document: '../_breathe_autogen/file/bout_09_09_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:87: WARNING: unknown document: '../_breathe_autogen/file/field2d_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:93: WARNING: unknown document: '../_breathe_autogen/file/field3d_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:100: WARNING: unknown document: '../_breathe_autogen/file/field__data_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:105: WARNING: unknown document: '../_breathe_autogen/file/fieldperp_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:112: WARNING: unknown document: '../_breathe_autogen/file/initialprofiles_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:117: WARNING: unknown document: '../_breathe_autogen/file/vecops_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:117: WARNING: unknown document: '../_breathe_autogen/file/difops_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:124: WARNING: unknown document: '../_breathe_autogen/file/vector2d_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:129: WARNING: unknown document: '../_breathe_autogen/file/vector3d_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:133: WARNING: unknown document: '../_breathe_autogen/file/where_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:139: WARNING: unknown document: '../_breathe_autogen/file/fft__fftw_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:139: WARNING: unknown document: '../_breathe_autogen/file/fft_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:146: WARNING: unknown document: '../_breathe_autogen/file/invert__laplace_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:154: WARNING: unknown document: '../_breathe_autogen/file/serial__tri_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:156: WARNING: unknown document: '../_breathe_autogen/file/serial__tri_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:160: WARNING: unknown document: '../_breathe_autogen/file/serial__band_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:162: WARNING: unknown document: '../_breathe_autogen/file/serial__band_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:166: WARNING: unknown document: '../_breathe_autogen/file/spt_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:168: WARNING: unknown document: '../_breathe_autogen/file/spt_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:173: WARNING: unknown document: '../_breathe_autogen/file/invert__parderiv_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:181: WARNING: unknown document: '../_breathe_autogen/file/cyclic_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:183: WARNING: unknown document: '../_breathe_autogen/file/cyclic_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:185: WARNING: unknown document: '../_breathe_autogen/file/lapack__routines_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:191: WARNING: unknown document: '../_breathe_autogen/file/boundary__factory_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:195: WARNING: unknown document: '../_breathe_autogen/file/boundary__region_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:200: WARNING: unknown document: '../_breathe_autogen/file/boundary__standard_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:204: WARNING: unknown document: '../_breathe_autogen/file/difops_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:204: WARNING: unknown document: '../_breathe_autogen/file/derivs_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:209: WARNING: unknown document: '../_breathe_autogen/file/interpolation_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:212: WARNING: unknown document: '../_breathe_autogen/file/mesh_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:220: WARNING: unknown document: '../_breathe_autogen/file/boutmesh_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:224: WARNING: unknown document: '../_breathe_autogen/file/boutmesh_8hxx' generating indices... /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:228: WARNING: unknown document: '../_breathe_autogen/file/gyro__average_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:231: WARNING: unknown document: '../_breathe_autogen/file/smoothing_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:234: WARNING: unknown document: '../_breathe_autogen/file/sourcex_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:240: WARNING: unknown document: '../_breathe_autogen/file/solver_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:247: WARNING: unknown document: '../_breathe_autogen/file/cvode_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:251: WARNING: unknown document: '../_breathe_autogen/file/cvode_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:255: WARNING: unknown document: '../_breathe_autogen/file/ida_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:259: WARNING: unknown document: '../_breathe_autogen/file/ida_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:263: WARNING: unknown document: '../_breathe_autogen/file/petsc_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:266: WARNING: unknown document: '../_breathe_autogen/file/petsc_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:270: WARNING: unknown document: '../_breathe_autogen/file/pvode_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:274: WARNING: unknown document: '../_breathe_autogen/file/pvode_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:278: WARNING: unknown document: '../_breathe_autogen/file/boutcomm_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:280: WARNING: unknown document: '../_breathe_autogen/file/boutexception_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:283: WARNING: unknown document: '../_breathe_autogen/file/derivs_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:283: WARNING: unknown document: '../_breathe_autogen/file/difops_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:289: WARNING: unknown document: '../_breathe_autogen/file/msg__stack_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:296: WARNING: unknown document: '../_breathe_autogen/file/options_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:300: WARNING: unknown document: '../_breathe_autogen/file/optionsreader_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:302: WARNING: unknown document: '../_breathe_autogen/file/output_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:304: WARNING: unknown document: '../_breathe_autogen/file/range_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:308: WARNING: unknown document: '../_breathe_autogen/file/timer_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:312: WARNING: unknown document: '../_breathe_autogen/file/utils_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:318: WARNING: unknown document: '../_breathe_autogen/file/optionparser_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:320: WARNING: unknown document: '../_breathe_autogen/file/options__ini_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/code_layout.rst:322: WARNING: unknown document: '../_breathe_autogen/file/options__ini_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/developer_docs/mesh.rst:31: WARNING: unknown document: '../_breathe_autogen/file/bout_09_09_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/algebraic_operators.rst:8: WARNING: unknown document: '../_breathe_autogen/file/field2d_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/algebraic_operators.rst:8: WARNING: unknown document: '../_breathe_autogen/file/field3d_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/algebraic_operators.rst:8: WARNING: unknown document: '../_breathe_autogen/file/fieldperp_8hxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:139: WARNING: Unparseable C++ cross-reference: '&' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] & ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] & ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] & ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:139: WARNING: Unparseable C++ cross-reference: '|' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] | ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] | ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] | ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:139: WARNING: Unparseable C++ cross-reference: 'false' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:139: WARNING: Unparseable C++ cross-reference: 'true' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:153: WARNING: Unparseable C++ cross-reference: '>' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] > ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] > ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] > ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:153: WARNING: Unparseable C++ cross-reference: '<' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] < ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] < ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] < ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:163: WARNING: Unparseable C++ cross-reference: 'true' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:163: WARNING: Unparseable C++ cross-reference: 'false' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:168: WARNING: Unparseable C++ cross-reference: 'true' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: true [error at 4] true ----^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:168: WARNING: Unparseable C++ cross-reference: 'false' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name, got keyword: false [error at 5] false -----^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:168: WARNING: Unparseable C++ cross-reference: '&' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] & ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] & ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] & ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/bout_options.rst:168: WARNING: Unparseable C++ cross-reference: '|' Error in cross-reference. If shorthand ref: Invalid C++ declaration: Expected identifier in nested name. [error at 0] | ^ If full function ref: Error when parsing function declaration. If the function has no return type: Error in declarator or parameters-and-qualifiers Invalid C++ declaration: Expected identifier in nested name. [error at 0] | ^ If the function has a return type: Invalid C++ declaration: Expected identifier in nested name. [error at 0] | ^ /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/differential_operators.rst:530: WARNING: unknown document: '../_breathe_autogen/file/fv__ops_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/differential_operators.rst:538: WARNING: unknown document: '../_breathe_autogen/file/fv__ops_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/laplacian.rst:185: WARNING: unknown document: '../_breathe_autogen/file/invert__laplace_8cxx' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/output_and_post.rst:580: WARNING: Lexing literal_block 'AppendTo[$Path,"/full/path/to/BOUT/tools/mathematicalib"]' as "mathematica" resulted in an error at token: '$'. Retrying in relaxed mode. /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/physics_models.rst:31: WARNING: undefined label: 'sec-cmake' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual/sphinx/user_docs/time_integration.rst:1030: WARNING: unknown document: '../_breathe_autogen/file/bout_09_09_8cxx' genindex py-modindex done writing additional pages... search done copying images... [ 4%] figs/layout1.png copying images... [ 8%] figs/layout2.png copying images... [ 12%] figs/memory.png copying images... [ 15%] figs/petsc_interface_overview.png copying images... [ 19%] figs/operator_stencil_uml.png copying images... [ 23%] figs/petsc_vector_set.png copying images... [ 27%] figs/fluid_norm_mc.png copying images... [ 31%] figs/diffStencils.png copying images... [ 35%] figs/topology_cross_section.svg copying images... [ 38%] figs/topology_schematic.svg copying images... [ 42%] figs/boutmesh-comms.png copying images... [ 46%] figs/grid_gen.png copying images... [ 50%] figs/zoidberg/elliptic_grid.png copying images... [ 54%] figs/zoidberg/poincare.png copying images... [ 58%] figs/5PointStencilMesh.png copying images... [ 62%] figs/5PointStencilMeshWithStencil.png copying images... [ 65%] figs/5PointStencilMatrix.png copying images... [ 69%] figs/5PointStencilGlobalIndices.png copying images... [ 73%] figs/par_laplace.png copying images... [ 77%] figs/snb-sinusoidal.png copying images... [ 81%] figs/snb-step.png copying images... [ 85%] figs/interchange_inst_test.png copying images... [ 88%] figs/sod_result.png copying images... [ 92%] figs/quickstart_conduction_example.png copying images... [ 96%] figs/stagLocations.png copying images... [100%] figs/init_balloon.png dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 130 warnings. The HTML pages are in docs. cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/manual && /usr/bin/cmake -E echo Generated\ HTML\ docs\ in\ file:///builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/manual/docs/index.html Generated HTML docs in file:///builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/manual/docs/index.html gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [100%] Built target sphinx-html /usr/bin/gmake -f manual/CMakeFiles/docs.dir/build.make manual/CMakeFiles/docs.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/manual /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/manual /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/manual/CMakeFiles/docs.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' /usr/bin/gmake -f manual/CMakeFiles/docs.dir/build.make manual/CMakeFiles/docs.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' gmake[2]: Nothing to be done for 'manual/CMakeFiles/docs.dir/build'. gmake[2]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' [100%] Built target docs gmake[1]: Leaving directory '/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich' /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/CMakeFiles 0 + export LD_LIBRARY_PATH=/usr/lib64/mpich/lib + LD_LIBRARY_PATH=/usr/lib64/mpich/lib + export PYTHONPATH= + PYTHONPATH= + '[' mpich = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ '[' sh = sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo x +++ '[' -n x ']' ++++ eval 'echo ${LD_LIBRARY_PATH}' +++++ echo /usr/lib64/mpich/lib +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' ' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD ']' +++ '[' LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n '__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval __MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' __MODULES_QUARANTINE_SET=1 ' ++++ eval '__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' __MODULES_QUARANTINE_SET=1 /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ __MODULES_QUAR_LD_LIBRARY_PATH=/usr/lib64/mpich/lib +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ __MODULES_QUARANTINE_SET=1 +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval '_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ unset __MODULES_AUTOINIT_INPROGRESS ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' /bin/sh '!=' '' ']' +++ export -f _module_raw +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ unset _mlcode _mlret +++ '[' -n '' ']' + module unload mpi/mpich-aarch64 + local _mlredir=0 + '[' -n '' ']' + case " $@ " in + '[' 0 -eq 0 ']' + _module_raw unload mpi/mpich-aarch64 ++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh unload mpi/mpich-aarch64 + eval 'unset LD_LIBRARY_PATH; unset MPI_COMPILER; MANPATH=/usr/share/man:; export MANPATH; unset MPI_INCLUDE; unset MPI_MAN; unset MPI_PYTHON_SITEARCH; unset _LMFILES_; unset LOADEDMODULES; PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig; export PKG_CONFIG_PATH; unset MPI_PYTHON3_SITEARCH; unset MPI_FORTRAN_MOD_DIR; unset MPI_HOME; unset __MODULES_LMCONFLICT; __MODULES_SHARE_MANPATH=:1; export __MODULES_SHARE_MANPATH; unset MPI_SYSCONFIG; unset MPI_SUFFIX; __MODULES_SHARE_PKG_CONFIG_PATH=:1; export __MODULES_SHARE_PKG_CONFIG_PATH; unset MPI_PYTHON2_SITEARCH; unset MPI_LIB; PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin; export PATH; unset MPI_BIN; test 0;' ++ unset LD_LIBRARY_PATH ++ unset MPI_COMPILER ++ MANPATH=/usr/share/man: ++ export MANPATH ++ unset MPI_INCLUDE ++ unset MPI_MAN ++ unset MPI_PYTHON_SITEARCH ++ unset _LMFILES_ ++ unset LOADEDMODULES ++ PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ unset MPI_PYTHON3_SITEARCH ++ unset MPI_FORTRAN_MOD_DIR ++ unset MPI_HOME ++ unset __MODULES_LMCONFLICT ++ __MODULES_SHARE_MANPATH=:1 ++ export __MODULES_SHARE_MANPATH ++ unset MPI_SYSCONFIG ++ unset MPI_SUFFIX ++ __MODULES_SHARE_PKG_CONFIG_PATH=:1 ++ export __MODULES_SHARE_PKG_CONFIG_PATH ++ unset MPI_PYTHON2_SITEARCH ++ unset MPI_LIB ++ PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ unset MPI_BIN ++ test 0 + _mlstatus=0 + return 0 + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.mVYV8U + umask 022 + cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + '[' /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT '!=' / ']' + rm -rf /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT ++ dirname /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT + mkdir -p /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + mkdir /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd BOUT++-v5.2.0.dev574+ge3f21cd2f + for mpi in openmpi mpich + '[' openmpi = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ '[' sh = sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD ']' +++ '[' LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' __MODULES_QUARANTINE_SET=1 ' ++++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' __MODULES_QUARANTINE_SET=1 /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ __MODULES_QUARANTINE_SET=1 +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval '_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ unset __MODULES_AUTOINIT_INPROGRESS ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' /bin/sh '!=' '' ']' +++ export -f _module_raw +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ unset _mlcode _mlret +++ '[' -n '' ']' + module load mpi/openmpi-aarch64 + local _mlredir=0 + '[' -n '' ']' + case " $@ " in + '[' 0 -eq 0 ']' + _module_raw load mpi/openmpi-aarch64 ++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh load mpi/openmpi-aarch64 + eval 'MPI_COMPILER=openmpi-aarch64; export MPI_COMPILER; LD_LIBRARY_PATH=/usr/lib64/openmpi/lib; export LD_LIBRARY_PATH; MPI_MAN=/usr/share/man/openmpi-aarch64; export MPI_MAN; MANPATH=/usr/share/man/openmpi-aarch64:/usr/share/man:; export MANPATH; MPI_INCLUDE=/usr/include/openmpi-aarch64; export MPI_INCLUDE; _LMFILES_=/usr/share/modulefiles/mpi/openmpi-aarch64; export _LMFILES_; LOADEDMODULES=mpi/openmpi-aarch64; export LOADEDMODULES; CMAKE_PREFIX_PATH=/usr/lib64/openmpi; export CMAKE_PREFIX_PATH; PKG_CONFIG_PATH=/usr/lib64/openmpi/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig; export PKG_CONFIG_PATH; MPI_PYTHON3_SITEARCH=/usr/lib64/python3.13/site-packages/openmpi; export MPI_PYTHON3_SITEARCH; MPI_HOME=/usr/lib64/openmpi; export MPI_HOME; MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi; export MPI_FORTRAN_MOD_DIR; __MODULES_LMALTNAME=mpi/openmpi-aarch64\&as\|mpi/default\&as\|mpi/latest; export __MODULES_LMALTNAME; __MODULES_LMCONFLICT=mpi/openmpi-aarch64\&mpi; export __MODULES_LMCONFLICT; __MODULES_SHARE_MANPATH=:2; export __MODULES_SHARE_MANPATH; MPI_SUFFIX=_openmpi; export MPI_SUFFIX; MPI_SYSCONFIG=/etc/openmpi-aarch64; export MPI_SYSCONFIG; __MODULES_SHARE_PKG_CONFIG_PATH=:1; export __MODULES_SHARE_PKG_CONFIG_PATH; MPI_LIB=/usr/lib64/openmpi/lib; export MPI_LIB; PATH=/usr/lib64/openmpi/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin; export PATH; MPI_BIN=/usr/lib64/openmpi/bin; export MPI_BIN; test 0;' ++ MPI_COMPILER=openmpi-aarch64 ++ export MPI_COMPILER ++ LD_LIBRARY_PATH=/usr/lib64/openmpi/lib ++ export LD_LIBRARY_PATH ++ MPI_MAN=/usr/share/man/openmpi-aarch64 ++ export MPI_MAN ++ MANPATH=/usr/share/man/openmpi-aarch64:/usr/share/man: ++ export MANPATH ++ MPI_INCLUDE=/usr/include/openmpi-aarch64 ++ export MPI_INCLUDE ++ _LMFILES_=/usr/share/modulefiles/mpi/openmpi-aarch64 ++ export _LMFILES_ ++ LOADEDMODULES=mpi/openmpi-aarch64 ++ export LOADEDMODULES ++ CMAKE_PREFIX_PATH=/usr/lib64/openmpi ++ export CMAKE_PREFIX_PATH ++ PKG_CONFIG_PATH=/usr/lib64/openmpi/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MPI_PYTHON3_SITEARCH=/usr/lib64/python3.13/site-packages/openmpi ++ export MPI_PYTHON3_SITEARCH ++ MPI_HOME=/usr/lib64/openmpi ++ export MPI_HOME ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi ++ export MPI_FORTRAN_MOD_DIR ++ __MODULES_LMALTNAME='mpi/openmpi-aarch64&as|mpi/default&as|mpi/latest' ++ export __MODULES_LMALTNAME ++ __MODULES_LMCONFLICT='mpi/openmpi-aarch64&mpi' ++ export __MODULES_LMCONFLICT ++ __MODULES_SHARE_MANPATH=:2 ++ export __MODULES_SHARE_MANPATH ++ MPI_SUFFIX=_openmpi ++ export MPI_SUFFIX ++ MPI_SYSCONFIG=/etc/openmpi-aarch64 ++ export MPI_SYSCONFIG ++ __MODULES_SHARE_PKG_CONFIG_PATH=:1 ++ export __MODULES_SHARE_PKG_CONFIG_PATH ++ MPI_LIB=/usr/lib64/openmpi/lib ++ export MPI_LIB ++ PATH=/usr/lib64/openmpi/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ MPI_BIN=/usr/lib64/openmpi/bin ++ export MPI_BIN ++ test 0 + _mlstatus=0 + return 0 + export PRTE_MCA_rmaps_default_mapping_policy=:oversubscribe + PRTE_MCA_rmaps_default_mapping_policy=:oversubscribe + DESTDIR=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT + /usr/bin/cmake --install build_openmpi -- Install configuration: "RelWithDebInfo" -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/python3.13/site-packages/openmpi/boutpp/libboutpp.cpython-313-aarch64-linux-gnu.so -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/python3.13/site-packages/openmpi/boutpp/libboutpp.cpython-313-aarch64-linux-gnu.so" to "/usr//usr/lib64/openmpi/lib" -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/python3.13/site-packages/openmpi/boutpp/__init__.py -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/openmpi/lib/libpvode.so.1.0.0 -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/openmpi/lib/libpvode.so.1.0.0" to "/usr//usr/lib64/openmpi/lib" -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/openmpi/lib/libpvode.so -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/openmpi/lib/libpvpre.so.1.0.0 -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/openmpi/lib/libpvpre.so.1.0.0" to "/usr//usr/lib64/openmpi/lib" -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/openmpi/lib/libpvpre.so -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++ -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/pvode -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/pvode/band.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/pvode/cvdiag.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/pvode/cvode.h -- Installing: 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/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/pvode/spgmr.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/pvode/vector.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/openmpi/lib/cmake/PVODE/PVODETargets.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/openmpi/lib/cmake/PVODE/PVODETargets-relwithdebinfo.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/locale/es/LC_MESSAGES/libbout.mo -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/locale/de/LC_MESSAGES/libbout.mo -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/locale/fr/LC_MESSAGES/libbout.mo -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/locale/zh_CN/LC_MESSAGES/libbout.mo -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/locale/zh_TW/LC_MESSAGES/libbout.mo -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/openmpi/lib/libbout++.so.5.1.0 -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/openmpi/lib/libbout++.so.5.1.0" to "/usr//usr/lib64/openmpi/lib" -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/openmpi/lib/libbout++.so -- Up-to-date: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++ -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/boundary_factory.hxx -- Installing: 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/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/bout/griddata.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/bout/gyro_average.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/bout/hypre_interface.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/bout/hyprelib.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/bout/index_derivs.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/bout/index_derivs_interface.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/bout/initialprofiles.hxx -- Installing: 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Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/bout/invert/laplacexz.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/bout/invert_laplace.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/bout/invert_parderiv.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/bout/invert_pardiv.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/bout/invertable_operator.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/openmpi-aarch64/bout++/bout/lapack_routines.hxx -- Installing: 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/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libpvode.so.1.0.0 /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libpvode.so.1.0.0: RUNPATH=/usr//usr/lib64/openmpi/lib:/usr/lib64/openmpi/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libpvode.so.1.0.0: new RUNPATH: /usr/lib64/openmpi/lib + for f in $(find ${RPM_BUILD_ROOT}/${MPI_LIB} ${RPM_BUILD_ROOT}/${MPI_PYTHON3_SITEARCH} | grep -E '/libbout|/libpvode|/libpvpre') + chrpath -r /usr/lib64/openmpi/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libpvode.so /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libpvode.so: RUNPATH=/usr/lib64/openmpi/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libpvode.so: new RUNPATH: /usr/lib64/openmpi/lib + for f in $(find ${RPM_BUILD_ROOT}/${MPI_LIB} ${RPM_BUILD_ROOT}/${MPI_PYTHON3_SITEARCH} | grep -E '/libbout|/libpvode|/libpvpre') + chrpath -r /usr/lib64/openmpi/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libpvpre.so.1.0.0 /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libpvpre.so.1.0.0: RUNPATH=/usr//usr/lib64/openmpi/lib:/usr/lib64/openmpi/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libpvpre.so.1.0.0: new RUNPATH: /usr/lib64/openmpi/lib + for f in $(find ${RPM_BUILD_ROOT}/${MPI_LIB} ${RPM_BUILD_ROOT}/${MPI_PYTHON3_SITEARCH} | grep -E '/libbout|/libpvode|/libpvpre') + chrpath -r /usr/lib64/openmpi/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libpvpre.so /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libpvpre.so: RUNPATH=/usr/lib64/openmpi/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libpvpre.so: new RUNPATH: /usr/lib64/openmpi/lib + for f in $(find ${RPM_BUILD_ROOT}/${MPI_LIB} ${RPM_BUILD_ROOT}/${MPI_PYTHON3_SITEARCH} | grep -E '/libbout|/libpvode|/libpvpre') + chrpath -r /usr/lib64/openmpi/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libbout++.so.5.1.0 /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libbout++.so.5.1.0: RUNPATH=/usr//usr/lib64/openmpi/lib:/usr/lib64/openmpi/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libbout++.so.5.1.0: new RUNPATH: /usr/lib64/openmpi/lib + for f in $(find ${RPM_BUILD_ROOT}/${MPI_LIB} ${RPM_BUILD_ROOT}/${MPI_PYTHON3_SITEARCH} | grep -E '/libbout|/libpvode|/libpvpre') + chrpath -r /usr/lib64/openmpi/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libbout++.so /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libbout++.so: RUNPATH=/usr/lib64/openmpi/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/openmpi/lib/libbout++.so: new RUNPATH: /usr/lib64/openmpi/lib + for f in $(find ${RPM_BUILD_ROOT}/${MPI_LIB} ${RPM_BUILD_ROOT}/${MPI_PYTHON3_SITEARCH} | grep -E '/libbout|/libpvode|/libpvpre') + chrpath -r /usr/lib64/openmpi/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/python3.13/site-packages/openmpi/boutpp/libboutpp.cpython-313-aarch64-linux-gnu.so /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/python3.13/site-packages/openmpi/boutpp/libboutpp.cpython-313-aarch64-linux-gnu.so: RUNPATH=/usr//usr/lib64/openmpi/lib:/usr/lib64/openmpi/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/python3.13/site-packages/openmpi/boutpp/libboutpp.cpython-313-aarch64-linux-gnu.so: new RUNPATH: /usr/lib64/openmpi/lib + rm -rf /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/bout++ + mkdir -p /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/modulefiles/bout++ + cat + DESTDIR=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT + /usr/bin/cmake --install build_openmpi/manual -- Install configuration: "RelWithDebInfo" -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++/ -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_static -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_static/pygments.css -- Installing: 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Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_apidoc/boutdata.html -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_apidoc/boutpp.html -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_apidoc/boututils.html -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_apidoc/zoidberg.html -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_sources -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_sources/_apidoc -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_sources/_apidoc/boutdata.rst.txt -- Installing: 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/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_images/init_balloon.png -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//searchindex.js -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//objects.inv + '[' openmpi = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ '[' sh = sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo x +++ '[' -n x ']' ++++ eval 'echo ${LD_LIBRARY_PATH}' +++++ echo /usr/lib64/openmpi/lib +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' ' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD ']' +++ '[' LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n '__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval __MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' __MODULES_QUARANTINE_SET=1 ' ++++ eval '__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' __MODULES_QUARANTINE_SET=1 /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ __MODULES_QUAR_LD_LIBRARY_PATH=/usr/lib64/openmpi/lib +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ __MODULES_QUARANTINE_SET=1 +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval '_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ unset __MODULES_AUTOINIT_INPROGRESS ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' /bin/sh '!=' '' ']' +++ export -f _module_raw +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ unset _mlcode _mlret +++ '[' -n '' ']' + module unload mpi/openmpi-aarch64 + local _mlredir=0 + '[' -n '' ']' + case " $@ " in + '[' 0 -eq 0 ']' + _module_raw unload mpi/openmpi-aarch64 ++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh unload mpi/openmpi-aarch64 + eval 'unset MPI_COMPILER; unset LD_LIBRARY_PATH; unset MPI_MAN; MANPATH=/usr/share/man:; export MANPATH; unset MPI_INCLUDE; unset _LMFILES_; unset LOADEDMODULES; unset CMAKE_PREFIX_PATH; PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig; export PKG_CONFIG_PATH; unset MPI_PYTHON3_SITEARCH; unset MPI_HOME; unset MPI_FORTRAN_MOD_DIR; unset __MODULES_LMALTNAME; unset __MODULES_LMCONFLICT; __MODULES_SHARE_MANPATH=:1; export __MODULES_SHARE_MANPATH; unset MPI_SUFFIX; unset MPI_SYSCONFIG; __MODULES_SHARE_PKG_CONFIG_PATH=:1; export __MODULES_SHARE_PKG_CONFIG_PATH; unset MPI_LIB; PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin; export PATH; unset MPI_BIN; test 0;' ++ unset MPI_COMPILER ++ unset LD_LIBRARY_PATH ++ unset MPI_MAN ++ MANPATH=/usr/share/man: ++ export MANPATH ++ unset MPI_INCLUDE ++ unset _LMFILES_ ++ unset LOADEDMODULES ++ unset CMAKE_PREFIX_PATH ++ PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ unset MPI_PYTHON3_SITEARCH ++ unset MPI_HOME ++ unset MPI_FORTRAN_MOD_DIR ++ unset __MODULES_LMALTNAME ++ unset __MODULES_LMCONFLICT ++ __MODULES_SHARE_MANPATH=:1 ++ export __MODULES_SHARE_MANPATH ++ unset MPI_SUFFIX ++ unset MPI_SYSCONFIG ++ __MODULES_SHARE_PKG_CONFIG_PATH=:1 ++ export __MODULES_SHARE_PKG_CONFIG_PATH ++ unset MPI_LIB ++ PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ unset MPI_BIN ++ test 0 + _mlstatus=0 + return 0 + for mpi in openmpi mpich + '[' mpich = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ '[' sh = sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD ']' +++ '[' LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' __MODULES_QUARANTINE_SET=1 ' ++++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' __MODULES_QUARANTINE_SET=1 /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ __MODULES_QUARANTINE_SET=1 +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; LOADEDMODULES=; export LOADEDMODULES; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval '_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; LOADEDMODULES=; export LOADEDMODULES; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ unset __MODULES_AUTOINIT_INPROGRESS ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ LOADEDMODULES= ++++ export LOADEDMODULES ++++ test 0 +++ '[' /bin/sh '!=' '' ']' +++ export -f _module_raw +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ unset _mlcode _mlret +++ '[' -n '' ']' + module load mpi/mpich-aarch64 + local _mlredir=0 + '[' -n '' ']' + case " $@ " in + '[' 0 -eq 0 ']' + _module_raw load mpi/mpich-aarch64 ++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh load mpi/mpich-aarch64 + eval 'LD_LIBRARY_PATH=/usr/lib64/mpich/lib; export LD_LIBRARY_PATH; MPI_COMPILER=mpich-aarch64; export MPI_COMPILER; MANPATH=/usr/share/man/mpich-aarch64:/usr/share/man:; export MANPATH; MPI_INCLUDE=/usr/include/mpich-aarch64; export MPI_INCLUDE; MPI_MAN=/usr/share/man/mpich-aarch64; export MPI_MAN; MPI_PYTHON_SITEARCH=%\{python2_sitearch\}/mpich; export MPI_PYTHON_SITEARCH; _LMFILES_=/usr/share/modulefiles/mpi/mpich-aarch64; export _LMFILES_; LOADEDMODULES=mpi/mpich-aarch64; export LOADEDMODULES; PKG_CONFIG_PATH=/usr/lib64/mpich/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig; export PKG_CONFIG_PATH; MPI_PYTHON3_SITEARCH=/usr/lib64/python3.13/site-packages/mpich; export MPI_PYTHON3_SITEARCH; MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/mpich; export MPI_FORTRAN_MOD_DIR; MPI_HOME=/usr/lib64/mpich; export MPI_HOME; __MODULES_LMCONFLICT=mpi/mpich-aarch64\&mpi; export __MODULES_LMCONFLICT; __MODULES_SHARE_MANPATH=:2; export __MODULES_SHARE_MANPATH; MPI_SYSCONFIG=/etc/mpich-aarch64; export MPI_SYSCONFIG; MPI_SUFFIX=_mpich; export MPI_SUFFIX; __MODULES_SHARE_PKG_CONFIG_PATH=:1; export __MODULES_SHARE_PKG_CONFIG_PATH; MPI_PYTHON2_SITEARCH=%\{python2_sitearch\}/mpich; export MPI_PYTHON2_SITEARCH; MPI_LIB=/usr/lib64/mpich/lib; export MPI_LIB; PATH=/usr/lib64/mpich/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin; export PATH; MPI_BIN=/usr/lib64/mpich/bin; export MPI_BIN; test 0;' ++ LD_LIBRARY_PATH=/usr/lib64/mpich/lib ++ export LD_LIBRARY_PATH ++ MPI_COMPILER=mpich-aarch64 ++ export MPI_COMPILER ++ MANPATH=/usr/share/man/mpich-aarch64:/usr/share/man: ++ export MANPATH ++ MPI_INCLUDE=/usr/include/mpich-aarch64 ++ export MPI_INCLUDE ++ MPI_MAN=/usr/share/man/mpich-aarch64 ++ export MPI_MAN ++ MPI_PYTHON_SITEARCH='%{python2_sitearch}/mpich' ++ export MPI_PYTHON_SITEARCH ++ _LMFILES_=/usr/share/modulefiles/mpi/mpich-aarch64 ++ export _LMFILES_ ++ LOADEDMODULES=mpi/mpich-aarch64 ++ export LOADEDMODULES ++ PKG_CONFIG_PATH=/usr/lib64/mpich/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MPI_PYTHON3_SITEARCH=/usr/lib64/python3.13/site-packages/mpich ++ export MPI_PYTHON3_SITEARCH ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/mpich ++ export MPI_FORTRAN_MOD_DIR ++ MPI_HOME=/usr/lib64/mpich ++ export MPI_HOME ++ __MODULES_LMCONFLICT='mpi/mpich-aarch64&mpi' ++ export __MODULES_LMCONFLICT ++ __MODULES_SHARE_MANPATH=:2 ++ export __MODULES_SHARE_MANPATH ++ MPI_SYSCONFIG=/etc/mpich-aarch64 ++ export MPI_SYSCONFIG ++ MPI_SUFFIX=_mpich ++ export MPI_SUFFIX ++ __MODULES_SHARE_PKG_CONFIG_PATH=:1 ++ export __MODULES_SHARE_PKG_CONFIG_PATH ++ MPI_PYTHON2_SITEARCH='%{python2_sitearch}/mpich' ++ export MPI_PYTHON2_SITEARCH ++ MPI_LIB=/usr/lib64/mpich/lib ++ export MPI_LIB ++ PATH=/usr/lib64/mpich/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ MPI_BIN=/usr/lib64/mpich/bin ++ export MPI_BIN ++ test 0 + _mlstatus=0 + return 0 + export 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer' + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer' + DESTDIR=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT + /usr/bin/cmake --install build_mpich -- Install configuration: "RelWithDebInfo" -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/python3.13/site-packages/mpich/boutpp/libboutpp.cpython-313-aarch64-linux-gnu.so -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/python3.13/site-packages/mpich/boutpp/libboutpp.cpython-313-aarch64-linux-gnu.so" to "/usr//usr/lib64/mpich/lib" -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/python3.13/site-packages/mpich/boutpp/__init__.py -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/libpvode.so.1.0.0 -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/libpvode.so.1.0.0" to "/usr//usr/lib64/mpich/lib" -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/libpvode.so -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/libpvpre.so.1.0.0 -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/libpvpre.so.1.0.0" to "/usr//usr/lib64/mpich/lib" -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/libpvpre.so -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++ -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/pvode -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/pvode/band.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/pvode/cvdiag.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/pvode/cvode.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/pvode/cvspgmr.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/pvode/iterativ.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/pvode/llnlmath.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/pvode/llnltyps.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/pvode/nvector.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/pvode/pvbbdpre.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/pvode/smalldense.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/pvode/spgmr.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/pvode/vector.h -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/PVODE/PVODETargets.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/PVODE/PVODETargets-relwithdebinfo.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/locale/es/LC_MESSAGES/libbout.mo -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/locale/de/LC_MESSAGES/libbout.mo -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/locale/fr/LC_MESSAGES/libbout.mo -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/locale/zh_CN/LC_MESSAGES/libbout.mo -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/locale/zh_TW/LC_MESSAGES/libbout.mo -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/libbout++.so.5.1.0 -- Set non-toolchain portion of runtime path of "/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/libbout++.so.5.1.0" to "/usr//usr/lib64/mpich/lib" -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/libbout++.so -- Up-to-date: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++ -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/boundary_factory.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/boundary_op.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/boundary_region.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/boundary_standard.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/adios_object.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/array.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/assert.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/boundary_factory.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/boundary_op.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/boundary_region.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/boundary_standard.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/bout.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/bout_enum_class.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/bout_types.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/boutcomm.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/boutexception.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/build_config.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/caliper_wrapper.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/constants.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/coordinates.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/coordinates_accessor.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/cyclic_reduction.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/dcomplex.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/deriv_store.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/derivs.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/difops.hxx -- Installing: 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/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/parallel_boundary_region.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/smoothing.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/sourcex.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/stencils.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/unused.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/utils.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/vecops.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/vector2d.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/vector3d.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/where.hxx -- Up-to-date: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++ -- Up-to-date: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/version.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/revision.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/include/mpich-aarch64/bout++/bout/build_defines.hxx -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-add-mod-path -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-archive-helper.sh -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-boutdata-restart-create -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-build-deps.sh -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-changelog-generator.py -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-log-color -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-sonnet -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-stop-script -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-v5-factory-upgrader.py -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-v5-format-upgrader.py -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-v5-header-upgrader.py -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-v5-input-file-upgrader.py -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-v5-macro-upgrader.py -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-v5-physics-model-upgrader.py -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-v5-xzinterpolation-upgrader.py -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout_3to4.py -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout_4to5 -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/bin/bout-config -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/python3.13/site-packages/mpich/boutconfig/__init__.py -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/bout++Targets.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/bout++Targets-relwithdebinfo.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/bout++ConfigVersion.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/BOUT++functions.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/CorrectWindowsPaths.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/FindClangFormat.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/FindFFTW.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/FindHYPRE.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/FindnetCDF.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/FindnetCDFCxx.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/FindPackageMultipass.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/FindLibuuid.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/FindPETSc.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/FindScoreP.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/FindSLEPc.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/FindSUNDIALS.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/FindSphinx.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/ResolveCompilerPaths.cmake -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/mpich/lib/cmake/bout++/bout++Config.cmake ++ find /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/python3.13/site-packages/mpich ++ grep -E '/libbout|/libpvode|/libpvpre' + for f in $(find ${RPM_BUILD_ROOT}/${MPI_LIB} ${RPM_BUILD_ROOT}/${MPI_PYTHON3_SITEARCH} | grep -E '/libbout|/libpvode|/libpvpre') + chrpath -r /usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libpvode.so.1.0.0 /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libpvode.so.1.0.0: RUNPATH=/usr//usr/lib64/mpich/lib:/usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libpvode.so.1.0.0: new RUNPATH: /usr/lib64/mpich/lib + for f in $(find ${RPM_BUILD_ROOT}/${MPI_LIB} ${RPM_BUILD_ROOT}/${MPI_PYTHON3_SITEARCH} | grep -E '/libbout|/libpvode|/libpvpre') + chrpath -r /usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libpvode.so /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libpvode.so: RUNPATH=/usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libpvode.so: new RUNPATH: /usr/lib64/mpich/lib + for f in $(find ${RPM_BUILD_ROOT}/${MPI_LIB} ${RPM_BUILD_ROOT}/${MPI_PYTHON3_SITEARCH} | grep -E '/libbout|/libpvode|/libpvpre') + chrpath -r /usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libpvpre.so.1.0.0 /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libpvpre.so.1.0.0: RUNPATH=/usr//usr/lib64/mpich/lib:/usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libpvpre.so.1.0.0: new RUNPATH: /usr/lib64/mpich/lib + for f in $(find ${RPM_BUILD_ROOT}/${MPI_LIB} ${RPM_BUILD_ROOT}/${MPI_PYTHON3_SITEARCH} | grep -E '/libbout|/libpvode|/libpvpre') + chrpath -r /usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libpvpre.so /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libpvpre.so: RUNPATH=/usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libpvpre.so: new RUNPATH: /usr/lib64/mpich/lib + for f in $(find ${RPM_BUILD_ROOT}/${MPI_LIB} ${RPM_BUILD_ROOT}/${MPI_PYTHON3_SITEARCH} | grep -E '/libbout|/libpvode|/libpvpre') + chrpath -r /usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libbout++.so.5.1.0 /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libbout++.so.5.1.0: RUNPATH=/usr//usr/lib64/mpich/lib:/usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libbout++.so.5.1.0: new RUNPATH: /usr/lib64/mpich/lib + for f in $(find ${RPM_BUILD_ROOT}/${MPI_LIB} ${RPM_BUILD_ROOT}/${MPI_PYTHON3_SITEARCH} | grep -E '/libbout|/libpvode|/libpvpre') + chrpath -r /usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libbout++.so /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libbout++.so: RUNPATH=/usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/mpich/lib/libbout++.so: new RUNPATH: /usr/lib64/mpich/lib + for f in $(find ${RPM_BUILD_ROOT}/${MPI_LIB} ${RPM_BUILD_ROOT}/${MPI_PYTHON3_SITEARCH} | grep -E '/libbout|/libpvode|/libpvpre') + chrpath -r /usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/python3.13/site-packages/mpich/boutpp/libboutpp.cpython-313-aarch64-linux-gnu.so /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/python3.13/site-packages/mpich/boutpp/libboutpp.cpython-313-aarch64-linux-gnu.so: RUNPATH=/usr//usr/lib64/mpich/lib:/usr/lib64/mpich/lib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT//usr/lib64/python3.13/site-packages/mpich/boutpp/libboutpp.cpython-313-aarch64-linux-gnu.so: new RUNPATH: /usr/lib64/mpich/lib + rm -rf /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/bout++ + mkdir -p /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/modulefiles/bout++ + cat + DESTDIR=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT + /usr/bin/cmake --install build_mpich/manual -- Install configuration: "RelWithDebInfo" -- Up-to-date: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++/ -- Up-to-date: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_static -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_static/pygments.css -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_static/basic.css -- Up-to-date: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//_static/doctools.js -- 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/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//searchindex.js -- Installing: /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++//objects.inv + '[' mpich = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ '[' sh = sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo x +++ '[' -n x ']' ++++ eval 'echo ${LD_LIBRARY_PATH}' +++++ echo /usr/lib64/mpich/lib +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' ' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD ']' +++ '[' LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n '__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval __MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' __MODULES_QUARANTINE_SET=1 ' ++++ eval '__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' __MODULES_QUARANTINE_SET=1 /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ __MODULES_QUAR_LD_LIBRARY_PATH=/usr/lib64/mpich/lib +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ __MODULES_QUARANTINE_SET=1 +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval '_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ unset __MODULES_AUTOINIT_INPROGRESS ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' /bin/sh '!=' '' ']' +++ export -f _module_raw +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ unset _mlcode _mlret +++ '[' -n '' ']' + module unload mpi/mpich-aarch64 + local _mlredir=0 + '[' -n '' ']' + case " $@ " in + '[' 0 -eq 0 ']' + _module_raw unload mpi/mpich-aarch64 ++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh unload mpi/mpich-aarch64 + eval 'unset LD_LIBRARY_PATH; unset MPI_COMPILER; MANPATH=/usr/share/man:; export MANPATH; unset MPI_INCLUDE; unset MPI_MAN; unset MPI_PYTHON_SITEARCH; unset _LMFILES_; unset LOADEDMODULES; PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig; export PKG_CONFIG_PATH; unset MPI_PYTHON3_SITEARCH; unset MPI_FORTRAN_MOD_DIR; unset MPI_HOME; unset __MODULES_LMCONFLICT; __MODULES_SHARE_MANPATH=:1; export __MODULES_SHARE_MANPATH; unset MPI_SYSCONFIG; unset MPI_SUFFIX; __MODULES_SHARE_PKG_CONFIG_PATH=:1; export __MODULES_SHARE_PKG_CONFIG_PATH; unset MPI_PYTHON2_SITEARCH; unset MPI_LIB; PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin; export PATH; unset MPI_BIN; test 0;' ++ unset LD_LIBRARY_PATH ++ unset MPI_COMPILER ++ MANPATH=/usr/share/man: ++ export MANPATH ++ unset MPI_INCLUDE ++ unset MPI_MAN ++ unset MPI_PYTHON_SITEARCH ++ unset _LMFILES_ ++ unset LOADEDMODULES ++ PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ unset MPI_PYTHON3_SITEARCH ++ unset MPI_FORTRAN_MOD_DIR ++ unset MPI_HOME ++ unset __MODULES_LMCONFLICT ++ __MODULES_SHARE_MANPATH=:1 ++ export __MODULES_SHARE_MANPATH ++ unset MPI_SYSCONFIG ++ unset MPI_SUFFIX ++ __MODULES_SHARE_PKG_CONFIG_PATH=:1 ++ export __MODULES_SHARE_PKG_CONFIG_PATH ++ unset MPI_PYTHON2_SITEARCH ++ unset MPI_LIB ++ PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ unset MPI_BIN ++ test 0 + _mlstatus=0 + return 0 + /usr/lib/rpm/find-lang.sh /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT libbout + /usr/bin/find-debuginfo -j4 --strict-build-id -m -i --build-id-seed 5.2.0.dev574+ge3f21cd2f-1.fc42 --unique-debug-suffix -5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 --unique-debug-src-base bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f find-debuginfo: starting Extracting debug info from 8 files DWARF-compressing 8 files sepdebugcrcfix: Updated 8 CRC32s, 0 CRC32s did match. Creating .debug symlinks for symlinks to ELF files Copying sources found by 'debugedit -l' to /usr/src/debug/bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 find-debuginfo: done + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/check-rpaths + /usr/lib/rpm/redhat/brp-mangle-shebangs mangling shebang in /usr/lib64/openmpi/bin/bout-add-mod-path from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/openmpi/bin/bout-archive-helper.sh from /usr/bin/env bash to #!/usr/bin/bash mangling shebang in /usr/lib64/openmpi/bin/bout-boutdata-restart-create from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/openmpi/bin/bout-build-deps.sh from /usr/bin/env bash to #!/usr/bin/bash mangling shebang in /usr/lib64/openmpi/bin/bout-changelog-generator.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/openmpi/bin/bout-log-color from /bin/sh to #!/usr/bin/sh mangling shebang in /usr/lib64/openmpi/bin/bout-sonnet from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/openmpi/bin/bout-stop-script from /bin/bash to #!/usr/bin/bash mangling shebang in /usr/lib64/openmpi/bin/bout-v5-factory-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/openmpi/bin/bout-v5-format-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/openmpi/bin/bout-v5-header-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/openmpi/bin/bout-v5-input-file-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/openmpi/bin/bout-v5-macro-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/openmpi/bin/bout-v5-physics-model-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/openmpi/bin/bout-v5-xzinterpolation-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/openmpi/bin/bout_3to4.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/openmpi/bin/bout_4to5 from /bin/bash to #!/usr/bin/bash mangling shebang in /usr/lib64/openmpi/bin/bout-config from /bin/sh to #!/usr/bin/sh mangling shebang in /usr/lib64/mpich/bin/bout-add-mod-path from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/mpich/bin/bout-archive-helper.sh from /usr/bin/env bash to #!/usr/bin/bash mangling shebang in /usr/lib64/mpich/bin/bout-boutdata-restart-create from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/mpich/bin/bout-build-deps.sh from /usr/bin/env bash to #!/usr/bin/bash mangling shebang in /usr/lib64/mpich/bin/bout-changelog-generator.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/mpich/bin/bout-log-color from /bin/sh to #!/usr/bin/sh mangling shebang in /usr/lib64/mpich/bin/bout-sonnet from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/mpich/bin/bout-stop-script from /bin/bash to #!/usr/bin/bash mangling shebang in /usr/lib64/mpich/bin/bout-v5-factory-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/mpich/bin/bout-v5-format-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/mpich/bin/bout-v5-header-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/mpich/bin/bout-v5-input-file-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/mpich/bin/bout-v5-macro-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/mpich/bin/bout-v5-physics-model-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/mpich/bin/bout-v5-xzinterpolation-upgrader.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/mpich/bin/bout_3to4.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib64/mpich/bin/bout_4to5 from /bin/bash to #!/usr/bin/bash mangling shebang in /usr/lib64/mpich/bin/bout-config from /bin/sh to #!/usr/bin/sh + /usr/lib/rpm/brp-remove-la-files + env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j4 Bytecompiling .py files below /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/python3.13 using python3.13 Bytecompiling .py files below /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib/debug/usr/lib64/python3.13 using python3.13 + /usr/lib/rpm/redhat/brp-python-hardlink + /usr/bin/add-determinism --brp -j4 /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/python3.13/site-packages/openmpi/boutpp/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/python3.13/site-packages/mpich/boutpp/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/python3.13/site-packages/openmpi/boutconfig/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/lib64/python3.13/site-packages/mpich/boutconfig/__pycache__/__init__.cpython-313.pyc: rewriting with normalized contents Scanned 170 directories and 882 files, processed 54 inodes, 4 modified (0 replaced + 4 rewritten), 0 unsupported format, 0 errors Reading /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/SPECPARTS/rpm-debuginfo.specpart Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.UV3mme + umask 022 + cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd BOUT++-v5.2.0.dev574+ge3f21cd2f + for mpi in openmpi mpich + fail=1 + '[' openmpi = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ '[' sh = sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD ']' +++ '[' LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' __MODULES_QUARANTINE_SET=1 ' ++++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' __MODULES_QUARANTINE_SET=1 /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ __MODULES_QUARANTINE_SET=1 +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval '_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ unset __MODULES_AUTOINIT_INPROGRESS ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' /bin/sh '!=' '' ']' +++ export -f _module_raw +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ unset _mlcode _mlret +++ '[' -n '' ']' + module load mpi/openmpi-aarch64 + local _mlredir=0 + '[' -n '' ']' + case " $@ " in + '[' 0 -eq 0 ']' + _module_raw load mpi/openmpi-aarch64 ++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh load mpi/openmpi-aarch64 + eval 'MPI_COMPILER=openmpi-aarch64; export MPI_COMPILER; LD_LIBRARY_PATH=/usr/lib64/openmpi/lib; export LD_LIBRARY_PATH; MPI_MAN=/usr/share/man/openmpi-aarch64; export MPI_MAN; MANPATH=/usr/share/man/openmpi-aarch64:/usr/share/man:; export MANPATH; MPI_INCLUDE=/usr/include/openmpi-aarch64; export MPI_INCLUDE; _LMFILES_=/usr/share/modulefiles/mpi/openmpi-aarch64; export _LMFILES_; LOADEDMODULES=mpi/openmpi-aarch64; export LOADEDMODULES; CMAKE_PREFIX_PATH=/usr/lib64/openmpi; export CMAKE_PREFIX_PATH; PKG_CONFIG_PATH=/usr/lib64/openmpi/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig; export PKG_CONFIG_PATH; MPI_PYTHON3_SITEARCH=/usr/lib64/python3.13/site-packages/openmpi; export MPI_PYTHON3_SITEARCH; MPI_HOME=/usr/lib64/openmpi; export MPI_HOME; MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi; export MPI_FORTRAN_MOD_DIR; __MODULES_LMALTNAME=mpi/openmpi-aarch64\&as\|mpi/default\&as\|mpi/latest; export __MODULES_LMALTNAME; __MODULES_LMCONFLICT=mpi/openmpi-aarch64\&mpi; export __MODULES_LMCONFLICT; __MODULES_SHARE_MANPATH=:2; export __MODULES_SHARE_MANPATH; MPI_SUFFIX=_openmpi; export MPI_SUFFIX; MPI_SYSCONFIG=/etc/openmpi-aarch64; export MPI_SYSCONFIG; __MODULES_SHARE_PKG_CONFIG_PATH=:1; export __MODULES_SHARE_PKG_CONFIG_PATH; MPI_LIB=/usr/lib64/openmpi/lib; export MPI_LIB; PATH=/usr/lib64/openmpi/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin; export PATH; MPI_BIN=/usr/lib64/openmpi/bin; export MPI_BIN; test 0;' ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f ++ MPI_COMPILER=openmpi-aarch64 ++ export MPI_COMPILER ++ LD_LIBRARY_PATH=/usr/lib64/openmpi/lib ++ export LD_LIBRARY_PATH ++ MPI_MAN=/usr/share/man/openmpi-aarch64 ++ export MPI_MAN ++ MANPATH=/usr/share/man/openmpi-aarch64:/usr/share/man: ++ export MANPATH ++ MPI_INCLUDE=/usr/include/openmpi-aarch64 ++ export MPI_INCLUDE ++ _LMFILES_=/usr/share/modulefiles/mpi/openmpi-aarch64 ++ export _LMFILES_ ++ LOADEDMODULES=mpi/openmpi-aarch64 ++ export LOADEDMODULES ++ CMAKE_PREFIX_PATH=/usr/lib64/openmpi ++ export CMAKE_PREFIX_PATH ++ PKG_CONFIG_PATH=/usr/lib64/openmpi/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MPI_PYTHON3_SITEARCH=/usr/lib64/python3.13/site-packages/openmpi ++ export MPI_PYTHON3_SITEARCH ++ MPI_HOME=/usr/lib64/openmpi ++ export MPI_HOME ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi ++ export MPI_FORTRAN_MOD_DIR ++ __MODULES_LMALTNAME='mpi/openmpi-aarch64&as|mpi/default&as|mpi/latest' ++ export __MODULES_LMALTNAME ++ __MODULES_LMCONFLICT='mpi/openmpi-aarch64&mpi' ++ export __MODULES_LMCONFLICT ++ __MODULES_SHARE_MANPATH=:2 ++ export __MODULES_SHARE_MANPATH ++ MPI_SUFFIX=_openmpi ++ export MPI_SUFFIX ++ MPI_SYSCONFIG=/etc/openmpi-aarch64 ++ export MPI_SYSCONFIG ++ __MODULES_SHARE_PKG_CONFIG_PATH=:1 ++ export __MODULES_SHARE_PKG_CONFIG_PATH ++ MPI_LIB=/usr/lib64/openmpi/lib ++ export MPI_LIB ++ PATH=/usr/lib64/openmpi/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ MPI_BIN=/usr/lib64/openmpi/bin ++ export MPI_BIN ++ test 0 + _mlstatus=0 + return 0 + export PRTE_MCA_rmaps_default_mapping_policy=:oversubscribe + PRTE_MCA_rmaps_default_mapping_policy=:oversubscribe + pushd build_openmpi + export OMPI_MCA_rmaps_base_oversubscribe=yes + OMPI_MCA_rmaps_base_oversubscribe=yes + export PRTE_MCA_rmaps_default_mapping_policy=:oversubscribe + PRTE_MCA_rmaps_default_mapping_policy=:oversubscribe + export HDF5_USE_FILE_LOCKING=FALSE + HDF5_USE_FILE_LOCKING=FALSE + sed 's/ 3s / 30s /' -i tests/integrated/test-coordinates-initialization/runtest + pushd tests/integrated/test-boutpp/simple-model ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tests/integrated/test-boutpp/simple-model ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f + cat + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15384)] [New Thread 0xffffdffff180 (LWP 15385)] [Thread 0xffffdffff180 (LWP 15385) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15382 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: c872322d-1638-4fb0-a2fd-ae07cde3e6b6 Run started at : Mon Dec 9 15:22:47 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.1 0.0 0.3 149.0 -49.4 1.000e-01 253 3.21e-02 14.5 0.0 0.0 57.8 27.7 2.000e-01 152 2.43e-02 11.5 0.0 0.0 54.7 33.7 3.000e-01 150 2.44e-02 11.3 0.0 0.0 55.7 33.1 4.000e-01 155 2.43e-02 12.0 0.0 0.0 55.0 33.0 5.000e-01 139 2.37e-02 10.8 0.0 0.0 56.1 33.1 6.000e-01 124 2.37e-02 9.8 0.0 0.0 56.8 33.4 7.000e-01 130 2.36e-02 10.1 0.0 0.0 57.1 32.9 8.000e-01 163 2.43e-02 12.3 0.0 0.0 55.4 32.3 9.000e-01 142 2.39e-02 10.9 0.0 0.0 55.8 33.3 1.000e+00 176 2.51e-02 12.8 0.0 0.0 55.1 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:22:47 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15384) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15382) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15394)] [New Thread 0xffffdffff180 (LWP 15395)] [Thread 0xffffdffff180 (LWP 15395) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15392 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: d3ef553e-bfed-41ff-aaba-1316c732ec95 Run started at : Mon Dec 9 15:23:02 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.4 149.1 -49.5 1.000e-01 253 3.23e-02 14.3 0.0 0.0 58.4 27.3 2.000e-01 152 2.44e-02 11.4 0.0 0.0 54.7 33.9 3.000e-01 150 2.46e-02 11.3 0.0 0.0 55.4 33.4 4.000e-01 155 2.44e-02 11.7 0.0 0.0 55.1 33.2 5.000e-01 139 2.43e-02 10.6 0.0 0.0 56.3 33.1 6.000e-01 124 2.44e-02 9.5 0.0 0.0 56.3 34.2 7.000e-01 130 2.43e-02 9.8 0.0 0.0 56.7 33.4 8.000e-01 163 2.49e-02 12.1 0.0 0.0 55.4 32.6 9.000e-01 142 2.43e-02 10.8 0.0 0.0 56.4 32.9 1.000e+00 176 2.54e-02 12.7 0.0 0.0 54.7 32.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:23:02 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15394) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15392) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15404)] [New Thread 0xffffdffff180 (LWP 15405)] [Thread 0xffffdffff180 (LWP 15405) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15402 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 90d5116c-a9f7-4b37-b0b8-6451ace19868 Run started at : Mon Dec 9 15:23:16 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.1 0.0 0.3 150.5 -51.0 1.000e-01 253 3.17e-02 14.6 0.0 0.0 58.1 27.3 2.000e-01 152 2.42e-02 11.6 0.0 0.0 54.2 34.2 3.000e-01 150 2.42e-02 11.5 0.0 0.0 55.2 33.2 4.000e-01 155 2.46e-02 11.6 0.0 0.0 55.3 33.1 5.000e-01 139 2.38e-02 10.9 0.0 0.0 55.9 33.3 6.000e-01 124 2.39e-02 9.7 0.0 0.0 56.9 33.5 7.000e-01 130 2.38e-02 10.1 0.0 0.0 56.9 33.0 8.000e-01 163 2.48e-02 12.0 0.0 0.0 55.4 32.6 9.000e-01 142 2.45e-02 10.7 0.0 0.0 56.7 32.6 1.000e+00 176 2.52e-02 12.8 0.0 0.0 55.3 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:23:17 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15404) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15402) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15414)] [New Thread 0xffffdffff180 (LWP 15415)] [Thread 0xffffdffff180 (LWP 15415) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15412 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: c9ca9c86-54d5-4fff-a1b5-51b29f2d66a4 Run started at : Mon Dec 9 15:23:31 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.0 0.0 0.4 148.6 -49.0 1.000e-01 253 3.20e-02 14.4 0.0 0.0 58.4 27.2 2.000e-01 152 2.47e-02 11.4 0.0 0.0 54.8 33.8 3.000e-01 150 2.45e-02 11.3 0.0 0.0 55.7 33.0 4.000e-01 155 2.45e-02 11.6 0.0 0.0 55.3 33.1 5.000e-01 139 2.41e-02 10.7 0.0 0.0 56.1 33.3 6.000e-01 124 2.40e-02 9.5 0.0 0.0 57.0 33.4 7.000e-01 130 2.43e-02 9.9 0.0 0.0 57.0 33.1 8.000e-01 163 2.46e-02 12.2 0.0 0.0 55.2 32.6 9.000e-01 142 2.48e-02 10.6 0.0 0.0 56.8 32.6 1.000e+00 176 2.56e-02 12.6 0.0 0.0 54.6 32.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:23:31 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15414) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15412) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15424)] [New Thread 0xffffdffff180 (LWP 15425)] [Thread 0xffffdffff180 (LWP 15425) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15422 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: f47e2f8a-94a6-4786-a4cb-28508b2c151d Run started at : Mon Dec 9 15:23:46 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.0 0.0 0.4 149.0 -49.4 1.000e-01 253 3.21e-02 14.5 0.0 0.0 57.8 27.7 2.000e-01 152 2.45e-02 11.4 0.0 0.0 54.9 33.7 3.000e-01 150 2.42e-02 11.5 0.0 0.0 55.2 33.3 4.000e-01 155 2.42e-02 11.8 0.0 0.0 55.1 33.1 5.000e-01 139 2.40e-02 10.6 0.0 0.0 56.0 33.4 6.000e-01 124 2.37e-02 9.8 0.0 0.0 56.9 33.4 7.000e-01 130 2.39e-02 10.1 0.0 0.0 56.2 33.7 8.000e-01 163 2.50e-02 12.0 0.0 0.0 55.3 32.7 9.000e-01 142 2.44e-02 10.8 0.0 0.0 56.7 32.5 1.000e+00 176 2.52e-02 12.9 0.0 0.0 55.2 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:23:46 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15424) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15422) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15434)] [New Thread 0xffffdffff180 (LWP 15435)] [Thread 0xffffdffff180 (LWP 15435) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15432 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 24499133-1e05-41a2-b5fc-ebf4076287d2 Run started at : Mon Dec 9 15:24:00 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.1 0.0 0.3 148.5 -48.9 1.000e-01 253 3.22e-02 14.4 0.0 0.0 58.2 27.4 2.000e-01 152 2.42e-02 11.5 0.0 0.0 54.6 33.9 3.000e-01 150 2.45e-02 11.4 0.0 0.0 55.5 33.1 4.000e-01 155 2.45e-02 11.8 0.0 0.0 55.5 32.7 5.000e-01 139 2.40e-02 10.7 0.0 0.0 56.4 33.0 6.000e-01 124 2.39e-02 9.6 0.0 0.0 57.5 32.8 7.000e-01 130 2.41e-02 9.9 0.0 0.0 57.0 33.1 8.000e-01 163 2.47e-02 12.1 0.0 0.0 55.5 32.4 9.000e-01 142 2.45e-02 10.8 0.0 0.0 56.9 32.4 1.000e+00 176 2.53e-02 12.7 0.0 0.0 55.0 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:24:00 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15434) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15432) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15444)] [New Thread 0xffffdffff180 (LWP 15445)] [Thread 0xffffdffff180 (LWP 15445) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15442 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3d30, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3d30) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3d30, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3d30, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3d30) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3d30, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: af7614e3-d316-49bb-9e15-73605f297d38 Run started at : Mon Dec 9 15:24:15 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.0 0.0 0.4 148.6 -49.0 1.000e-01 253 3.24e-02 14.4 0.0 0.0 58.2 27.4 2.000e-01 152 2.44e-02 11.7 0.0 0.0 54.5 33.8 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.5 33.2 4.000e-01 155 2.43e-02 11.7 0.0 0.0 55.2 33.1 5.000e-01 139 2.43e-02 10.6 0.0 0.0 55.6 33.8 6.000e-01 124 2.41e-02 9.7 0.0 0.0 57.2 33.1 7.000e-01 130 2.46e-02 9.8 0.0 0.0 57.5 32.7 8.000e-01 163 2.50e-02 12.0 0.0 0.0 55.6 32.4 9.000e-01 142 2.48e-02 10.7 0.0 0.0 56.9 32.4 1.000e+00 176 2.57e-02 12.6 0.0 0.0 55.3 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:24:15 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15444) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15442) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15454)] [New Thread 0xffffdffff180 (LWP 15455)] [Thread 0xffffdffff180 (LWP 15455) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15452 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: fdcf60b7-a5dd-438b-8fd0-039f538ae80f Run started at : Mon Dec 9 15:24:29 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.1 0.0 0.3 149.2 -49.6 1.000e-01 253 3.17e-02 14.6 0.0 0.0 58.1 27.3 2.000e-01 152 2.42e-02 11.7 0.0 0.0 55.1 33.3 3.000e-01 150 2.42e-02 11.4 0.0 0.0 55.8 32.8 4.000e-01 155 2.45e-02 11.7 0.0 0.0 55.4 33.0 5.000e-01 139 2.40e-02 10.7 0.0 0.0 56.2 33.1 6.000e-01 124 2.39e-02 9.7 0.0 0.0 57.2 33.1 7.000e-01 130 2.42e-02 10.0 0.0 0.0 57.0 33.0 8.000e-01 163 2.52e-02 12.0 0.0 0.0 55.7 32.3 9.000e-01 142 2.45e-02 10.7 0.0 0.0 56.7 32.6 1.000e+00 176 2.52e-02 12.9 0.0 0.0 54.8 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:24:30 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15454) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15452) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15464)] [New Thread 0xffffdffff180 (LWP 15465)] [Thread 0xffffdffff180 (LWP 15465) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15462 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 0678312d-2fc0-45e8-9ca1-146ca5c8b4b1 Run started at : Mon Dec 9 15:24:44 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.3 149.6 -50.0 1.000e-01 253 3.22e-02 14.4 0.0 0.0 58.3 27.3 2.000e-01 152 2.40e-02 11.7 0.0 0.0 54.9 33.4 3.000e-01 150 2.40e-02 11.5 0.0 0.0 55.3 33.3 4.000e-01 155 2.45e-02 11.7 0.0 0.0 55.5 32.8 5.000e-01 139 2.43e-02 10.6 0.0 0.0 55.9 33.5 6.000e-01 124 2.35e-02 9.7 0.0 0.0 57.1 33.2 7.000e-01 130 2.37e-02 10.2 0.0 0.0 56.8 33.1 8.000e-01 163 2.46e-02 12.2 0.0 0.0 55.4 32.3 9.000e-01 142 2.42e-02 10.8 0.0 0.0 56.3 32.8 1.000e+00 176 2.50e-02 12.9 0.0 0.0 55.1 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:24:44 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15464) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15462) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15474)] [New Thread 0xffffdffff180 (LWP 15475)] [Thread 0xffffdffff180 (LWP 15475) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15472 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 75c75219-0a57-46b7-b3cf-a5404a1be71b Run started at : Mon Dec 9 15:24:58 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.0 0.0 0.4 149.7 -50.1 1.000e-01 253 3.18e-02 14.5 0.0 0.0 58.2 27.3 2.000e-01 152 2.46e-02 11.7 0.0 0.0 54.8 33.5 3.000e-01 150 2.46e-02 11.2 0.0 0.0 55.6 33.1 4.000e-01 155 2.45e-02 11.7 0.0 0.0 55.3 33.0 5.000e-01 139 2.44e-02 10.6 0.0 0.0 56.6 32.8 6.000e-01 124 2.40e-02 9.6 0.0 0.0 57.1 33.3 7.000e-01 130 2.41e-02 10.0 0.0 0.0 57.1 32.9 8.000e-01 163 2.49e-02 12.1 0.0 0.0 55.9 32.0 9.000e-01 142 2.42e-02 10.9 0.0 0.0 56.5 32.6 1.000e+00 176 2.52e-02 12.8 0.0 0.0 54.8 32.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:24:59 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15474) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15472) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15484)] [New Thread 0xffffdffff180 (LWP 15485)] [Thread 0xffffdffff180 (LWP 15485) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15482 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 04657c08-4c78-4057-af7d-95141302033d Run started at : Mon Dec 9 15:25:13 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.3 148.9 -49.3 1.000e-01 253 3.17e-02 14.6 0.0 0.0 58.2 27.1 2.000e-01 152 2.42e-02 11.6 0.0 0.0 54.7 33.6 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.7 33.0 4.000e-01 155 2.43e-02 11.8 0.0 0.0 55.2 32.9 5.000e-01 139 2.42e-02 10.6 0.0 0.0 56.1 33.3 6.000e-01 124 2.37e-02 9.7 0.0 0.0 56.9 33.4 7.000e-01 130 2.36e-02 10.2 0.0 0.0 56.8 33.0 8.000e-01 163 2.44e-02 12.2 0.0 0.0 54.9 32.9 9.000e-01 142 2.43e-02 10.8 0.0 0.0 57.2 32.0 1.000e+00 176 2.50e-02 12.9 0.0 0.0 55.4 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.0 Run finished at : Mon Dec 9 15:25:13 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15484) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15482) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15494)] [New Thread 0xffffdffff180 (LWP 15495)] [Thread 0xffffdffff180 (LWP 15495) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15492 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 7fc352b4-5f8d-42e4-93f6-0d63025d7a9f Run started at : Mon Dec 9 15:25:27 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.3 148.7 -49.1 1.000e-01 253 3.18e-02 14.6 0.0 0.0 58.1 27.3 2.000e-01 152 2.42e-02 11.5 0.0 0.0 55.6 32.9 3.000e-01 150 2.41e-02 11.6 0.0 0.0 55.4 33.0 4.000e-01 155 2.41e-02 11.9 0.0 0.0 55.1 33.1 5.000e-01 139 2.36e-02 10.9 0.0 0.0 56.5 32.6 6.000e-01 124 2.39e-02 9.6 0.0 0.0 57.6 32.8 7.000e-01 130 2.40e-02 10.0 0.0 0.0 56.8 33.1 8.000e-01 163 2.46e-02 12.2 0.0 0.0 55.4 32.4 9.000e-01 142 2.40e-02 10.9 0.0 0.0 56.6 32.5 1.000e+00 176 2.49e-02 13.0 0.0 0.0 54.7 32.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.0 Run finished at : Mon Dec 9 15:25:28 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15494) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15492) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15504)] [New Thread 0xffffdffff180 (LWP 15505)] [Thread 0xffffdffff180 (LWP 15505) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15502 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 48613260-7533-4892-bfd1-4366589544a2 Run started at : Mon Dec 9 15:25:42 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.1 0.0 0.4 148.9 -49.3 1.000e-01 253 3.18e-02 14.6 0.0 0.0 58.7 26.7 2.000e-01 152 2.44e-02 11.5 0.0 0.0 55.4 33.1 3.000e-01 150 2.42e-02 11.3 0.0 0.0 56.1 32.6 4.000e-01 155 2.47e-02 11.7 0.0 0.0 55.7 32.6 5.000e-01 139 2.44e-02 10.6 0.0 0.0 56.7 32.7 6.000e-01 124 2.42e-02 9.5 0.0 0.0 57.5 33.0 7.000e-01 130 2.44e-02 9.9 0.0 0.0 57.3 32.8 8.000e-01 163 2.54e-02 11.9 0.0 0.0 55.9 32.1 9.000e-01 142 2.46e-02 10.7 0.0 0.0 56.9 32.4 1.000e+00 176 2.54e-02 12.8 0.0 0.0 55.7 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:25:42 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15504) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15502) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15514)] [New Thread 0xffffdffff180 (LWP 15515)] [Thread 0xffffdffff180 (LWP 15515) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15512 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: c4b97090-0589-47c5-849c-56adeb297162 Run started at : Mon Dec 9 15:25:57 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.4 148.4 -48.8 1.000e-01 253 3.25e-02 14.3 0.0 0.0 58.3 27.4 2.000e-01 152 2.43e-02 11.5 0.0 0.0 54.5 34.0 3.000e-01 150 2.42e-02 11.5 0.0 0.0 55.3 33.2 4.000e-01 155 2.45e-02 11.7 0.0 0.0 54.9 33.4 5.000e-01 139 2.38e-02 11.0 0.0 0.0 55.4 33.7 6.000e-01 124 2.40e-02 9.7 0.0 0.0 56.9 33.4 7.000e-01 130 2.43e-02 9.9 0.0 0.0 57.0 33.1 8.000e-01 163 2.51e-02 12.0 0.0 0.0 55.5 32.5 9.000e-01 142 2.45e-02 10.8 0.0 0.0 56.5 32.8 1.000e+00 176 2.56e-02 12.6 0.0 0.0 55.4 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:25:57 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15514) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15512) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15524)] [New Thread 0xffffdffff180 (LWP 15525)] [Thread 0xffffdffff180 (LWP 15525) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15522 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 5db0cb5b-3f07-4c00-aed1-0eabe7169bbb Run started at : Mon Dec 9 15:26:11 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.0 0.0 0.4 148.3 -48.8 1.000e-01 253 3.22e-02 14.3 0.0 0.0 58.6 27.1 2.000e-01 152 2.44e-02 11.5 0.0 0.0 54.8 33.7 3.000e-01 150 2.46e-02 11.3 0.0 0.0 55.9 32.8 4.000e-01 155 2.44e-02 11.7 0.0 0.0 55.3 33.0 5.000e-01 139 2.42e-02 10.6 0.0 0.0 56.3 33.1 6.000e-01 124 2.39e-02 9.6 0.0 0.0 57.3 33.1 7.000e-01 130 2.42e-02 10.0 0.0 0.0 57.4 32.6 8.000e-01 163 2.50e-02 12.1 0.0 0.0 56.1 31.9 9.000e-01 142 2.46e-02 10.7 0.0 0.0 56.4 33.0 1.000e+00 176 2.51e-02 12.8 0.0 0.0 55.3 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:26:11 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15524) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15522) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15534)] [New Thread 0xffffdffff180 (LWP 15535)] [Thread 0xffffdffff180 (LWP 15535) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15532 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 3f0b2c05-ffd2-4e7d-98c4-e3ade79a6a6b Run started at : Mon Dec 9 15:26:26 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.0 0.0 0.5 149.1 -49.6 1.000e-01 253 3.24e-02 14.3 0.0 0.0 58.5 27.2 2.000e-01 152 2.44e-02 11.5 0.0 0.0 55.4 33.1 3.000e-01 150 2.42e-02 11.5 0.0 0.0 55.8 32.7 4.000e-01 155 2.41e-02 11.8 0.0 0.0 55.2 33.0 5.000e-01 139 2.41e-02 10.7 0.0 0.0 56.7 32.6 6.000e-01 124 2.40e-02 9.6 0.0 0.0 58.2 32.2 7.000e-01 130 2.44e-02 9.9 0.0 0.0 57.6 32.5 8.000e-01 163 2.54e-02 11.8 0.0 0.0 55.9 32.3 9.000e-01 142 2.48e-02 10.6 0.0 0.0 57.3 32.1 1.000e+00 176 2.53e-02 12.7 0.0 0.0 55.5 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:26:26 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15534) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15532) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15544)] [New Thread 0xffffdffff180 (LWP 15545)] [Thread 0xffffdffff180 (LWP 15545) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15542 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: f80f3e74-0333-44f2-8601-7e5d24595852 Run started at : Mon Dec 9 15:26:40 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 -0.0 0.0 0.4 148.6 -49.0 1.000e-01 253 3.20e-02 14.6 0.0 0.0 58.1 27.3 2.000e-01 152 2.43e-02 11.4 0.0 0.0 54.5 34.1 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.5 33.2 4.000e-01 155 2.42e-02 11.8 0.0 0.0 55.0 33.2 5.000e-01 139 2.38e-02 10.8 0.0 0.0 56.0 33.2 6.000e-01 124 2.36e-02 9.8 0.0 0.0 56.9 33.3 7.000e-01 130 2.42e-02 10.0 0.0 0.0 56.5 33.5 8.000e-01 163 2.49e-02 12.1 0.0 0.0 55.6 32.3 9.000e-01 142 2.43e-02 10.8 0.0 0.0 56.4 32.8 1.000e+00 176 2.51e-02 12.9 0.0 0.0 55.2 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:26:41 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15544) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15542) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15554)] [New Thread 0xffffdffff180 (LWP 15555)] [Thread 0xffffdffff180 (LWP 15555) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15552 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: f8627bb9-3bce-43cd-8110-b601920a6bbd Run started at : Mon Dec 9 15:26:55 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.3 148.8 -49.2 1.000e-01 253 3.24e-02 14.3 0.0 0.0 58.6 27.1 2.000e-01 152 2.46e-02 11.4 0.0 0.0 55.1 33.5 3.000e-01 150 2.43e-02 11.4 0.0 0.0 55.2 33.4 4.000e-01 155 2.46e-02 11.5 0.0 0.0 55.4 33.1 5.000e-01 139 2.44e-02 10.5 0.0 0.0 56.6 32.9 6.000e-01 124 2.41e-02 9.6 0.0 0.0 56.9 33.5 7.000e-01 130 2.41e-02 10.0 0.0 0.0 56.6 33.4 8.000e-01 163 2.51e-02 12.0 0.0 0.0 55.4 32.6 9.000e-01 142 2.45e-02 10.7 0.0 0.0 56.7 32.6 1.000e+00 176 2.53e-02 12.7 0.0 0.0 54.6 32.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:26:55 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15554) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15552) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15564)] [New Thread 0xffffdffff180 (LWP 15565)] [Thread 0xffffdffff180 (LWP 15565) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15562 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 96ddc5cd-ed31-4b41-bd77-70f7fd8c912b Run started at : Mon Dec 9 15:27:10 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.03e-02 0.1 0.0 0.4 148.7 -49.1 1.000e-01 253 3.15e-02 14.7 0.0 0.0 57.9 27.4 2.000e-01 152 2.42e-02 11.5 0.0 0.0 54.9 33.6 3.000e-01 150 2.40e-02 11.6 0.0 0.0 54.5 33.9 4.000e-01 155 2.42e-02 11.8 0.0 0.0 55.4 32.9 5.000e-01 139 2.36e-02 10.8 0.0 0.0 56.0 33.2 6.000e-01 124 2.39e-02 9.6 0.0 0.0 57.1 33.2 7.000e-01 130 2.40e-02 10.0 0.0 0.0 57.3 32.7 8.000e-01 163 2.45e-02 12.3 0.0 0.0 55.1 32.6 9.000e-01 142 2.45e-02 10.7 0.0 0.0 56.6 32.7 1.000e+00 176 2.52e-02 12.8 0.0 0.0 55.0 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:27:10 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15564) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15562) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15574)] [New Thread 0xffffdffff180 (LWP 15575)] [Thread 0xffffdffff180 (LWP 15575) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15572 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 901c6c42-efa7-473b-a8fa-7453ca8edfa0 Run started at : Mon Dec 9 15:27:24 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.0 0.0 0.4 148.5 -49.0 1.000e-01 253 3.29e-02 14.1 0.0 0.0 58.3 27.6 2.000e-01 152 2.47e-02 11.5 0.0 0.0 54.8 33.7 3.000e-01 150 2.45e-02 11.3 0.0 0.0 55.1 33.6 4.000e-01 155 2.46e-02 11.6 0.0 0.0 55.1 33.3 5.000e-01 139 2.45e-02 10.5 0.0 0.0 56.1 33.4 6.000e-01 124 2.44e-02 9.4 0.0 0.0 56.8 33.7 7.000e-01 130 2.45e-02 9.8 0.0 0.0 56.8 33.4 8.000e-01 163 2.52e-02 11.9 0.0 0.0 55.3 32.9 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.6 32.8 1.000e+00 176 2.55e-02 12.6 0.0 0.0 55.2 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:27:24 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15574) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15572) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15584)] [New Thread 0xffffdffff180 (LWP 15585)] [Thread 0xffffdffff180 (LWP 15585) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15582 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: c936f953-e0d4-41b6-8f14-3b24807262f6 Run started at : Mon Dec 9 15:27:39 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.3 148.9 -49.3 1.000e-01 253 3.22e-02 14.3 0.0 0.0 58.3 27.4 2.000e-01 152 2.43e-02 11.6 0.0 0.0 54.3 34.2 3.000e-01 150 2.43e-02 11.4 0.0 0.0 55.3 33.3 4.000e-01 155 2.47e-02 11.6 0.0 0.0 55.1 33.3 5.000e-01 139 2.42e-02 10.7 0.0 0.0 56.2 33.1 6.000e-01 124 2.43e-02 9.5 0.0 0.0 57.5 33.0 7.000e-01 130 2.44e-02 9.9 0.0 0.0 56.9 33.2 8.000e-01 163 2.50e-02 12.0 0.0 0.0 55.4 32.6 9.000e-01 142 2.45e-02 10.7 0.0 0.0 56.3 33.0 1.000e+00 176 2.54e-02 12.7 0.0 0.0 55.6 31.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:27:39 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15584) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15582) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15594)] [New Thread 0xffffdffff180 (LWP 15595)] [Thread 0xffffdffff180 (LWP 15595) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15592 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 049800c6-48a6-498c-9937-61f4d3b9d2cd Run started at : Mon Dec 9 15:27:54 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.0 0.0 0.4 148.8 -49.2 1.000e-01 253 3.20e-02 14.5 0.0 0.0 58.0 27.6 2.000e-01 152 2.43e-02 11.5 0.0 0.0 54.8 33.7 3.000e-01 150 2.47e-02 11.2 0.0 0.0 55.8 33.1 4.000e-01 155 2.47e-02 11.6 0.0 0.0 55.2 33.2 5.000e-01 139 2.42e-02 10.6 0.0 0.0 56.2 33.2 6.000e-01 124 2.40e-02 9.5 0.0 0.0 56.8 33.6 7.000e-01 130 2.43e-02 9.9 0.0 0.0 56.3 33.8 8.000e-01 163 2.51e-02 12.3 0.0 0.0 54.7 33.0 9.000e-01 142 2.45e-02 10.6 0.0 0.0 56.1 33.3 1.000e+00 176 2.52e-02 12.7 0.0 0.0 54.8 32.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:27:54 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15594) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15592) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15604)] [New Thread 0xffffdffff180 (LWP 15605)] [Thread 0xffffdffff180 (LWP 15605) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15602 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 14b85315-9a88-4d0b-90ba-8388c9662a7f Run started at : Mon Dec 9 15:28:09 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.4 149.4 -49.9 1.000e-01 253 3.27e-02 14.1 0.0 0.0 58.4 27.5 2.000e-01 152 2.48e-02 11.3 0.0 0.0 55.1 33.5 3.000e-01 150 2.49e-02 11.1 0.0 0.0 55.2 33.7 4.000e-01 155 2.47e-02 11.5 0.0 0.0 55.0 33.5 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.3 33.2 6.000e-01 124 2.42e-02 9.5 0.0 0.0 56.7 33.7 7.000e-01 130 2.44e-02 9.9 0.0 0.0 56.5 33.6 8.000e-01 163 2.51e-02 11.9 0.0 0.0 54.9 33.2 9.000e-01 142 2.47e-02 10.6 0.0 0.0 56.0 33.4 1.000e+00 176 2.57e-02 12.6 0.0 0.0 55.2 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:28:09 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15604) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15602) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15614)] [New Thread 0xffffdffff180 (LWP 15615)] [Thread 0xffffdffff180 (LWP 15615) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15612 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 2d365433-ff3d-435e-b581-037d5dbe479e Run started at : Mon Dec 9 15:28:24 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.15e-02 0.1 0.0 0.4 147.9 -48.4 1.000e-01 253 3.25e-02 14.3 0.0 0.0 58.4 27.4 2.000e-01 152 2.46e-02 11.4 0.0 0.0 54.8 33.8 3.000e-01 150 2.46e-02 11.2 0.0 0.0 55.2 33.6 4.000e-01 155 2.51e-02 11.5 0.0 0.0 55.8 32.7 5.000e-01 139 2.45e-02 10.6 0.0 0.0 56.1 33.3 6.000e-01 124 2.45e-02 9.5 0.0 0.0 57.0 33.5 7.000e-01 130 2.49e-02 9.7 0.0 0.0 57.3 33.0 8.000e-01 163 2.57e-02 11.7 0.0 0.0 56.0 32.3 9.000e-01 142 2.50e-02 10.6 0.0 0.0 56.5 32.9 1.000e+00 176 2.61e-02 12.4 0.0 0.0 55.5 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:28:24 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15614) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15612) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15624)] [New Thread 0xffffdffff180 (LWP 15625)] [Thread 0xffffdffff180 (LWP 15625) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15622 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: d2261b57-76d4-44d5-a791-aeca49bf87d3 Run started at : Mon Dec 9 15:28:38 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 -0.0 0.0 0.4 148.9 -49.3 1.000e-01 253 3.26e-02 14.3 0.0 0.0 58.4 27.3 2.000e-01 152 2.45e-02 11.4 0.0 0.0 54.8 33.8 3.000e-01 150 2.44e-02 11.3 0.0 0.0 55.0 33.7 4.000e-01 155 2.45e-02 11.7 0.0 0.0 55.0 33.3 5.000e-01 139 2.44e-02 10.5 0.0 0.0 56.3 33.2 6.000e-01 124 2.40e-02 9.5 0.0 0.0 56.8 33.7 7.000e-01 130 2.44e-02 9.9 0.0 0.0 56.4 33.7 8.000e-01 163 2.51e-02 12.0 0.0 0.0 55.2 32.8 9.000e-01 142 2.49e-02 10.5 0.0 0.0 56.6 32.9 1.000e+00 176 2.55e-02 12.6 0.0 0.0 55.2 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:28:39 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15624) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15622) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15634)] [New Thread 0xffffdffff180 (LWP 15635)] [Thread 0xffffdffff180 (LWP 15635) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15632 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: aec02532-e01e-434a-9b39-5c30cdc59f2f Run started at : Mon Dec 9 15:28:53 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.0 0.0 0.4 149.3 -49.7 1.000e-01 253 3.22e-02 14.3 0.0 0.0 58.1 27.6 2.000e-01 152 2.46e-02 11.4 0.0 0.0 54.7 33.9 3.000e-01 150 2.43e-02 11.4 0.0 0.0 55.5 33.1 4.000e-01 155 2.45e-02 11.7 0.0 0.0 55.1 33.2 5.000e-01 139 2.44e-02 10.6 0.0 0.0 56.1 33.4 6.000e-01 124 2.41e-02 9.5 0.0 0.0 57.3 33.2 7.000e-01 130 2.43e-02 9.9 0.0 0.0 56.9 33.3 8.000e-01 163 2.53e-02 11.8 0.0 0.0 55.5 32.7 9.000e-01 142 2.49e-02 10.5 0.0 0.0 56.7 32.7 1.000e+00 176 2.57e-02 12.5 0.0 0.0 54.7 32.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:28:53 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15634) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15632) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15644)] [New Thread 0xffffdffff180 (LWP 15645)] [Thread 0xffffdffff180 (LWP 15645) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15642 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 86a5f046-2179-4e73-81a1-bd2c5217f72c Run started at : Mon Dec 9 15:29:08 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.1 0.0 0.3 149.8 -50.3 1.000e-01 253 3.29e-02 14.1 0.0 0.0 58.6 27.3 2.000e-01 152 2.50e-02 11.2 0.0 0.0 55.7 33.1 3.000e-01 150 2.47e-02 11.2 0.0 0.0 56.0 32.7 4.000e-01 155 2.52e-02 11.5 0.0 0.0 56.2 32.3 5.000e-01 139 2.47e-02 10.4 0.0 0.0 56.8 32.7 6.000e-01 124 2.46e-02 9.5 0.0 0.0 58.0 32.5 7.000e-01 130 2.51e-02 9.6 0.0 0.0 57.8 32.5 8.000e-01 163 2.59e-02 11.5 0.0 0.0 57.1 31.4 9.000e-01 142 2.55e-02 10.4 0.0 0.0 57.5 32.1 1.000e+00 176 2.66e-02 12.2 0.0 0.0 56.6 31.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:29:08 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15644) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15642) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15654)] [New Thread 0xffffdffff180 (LWP 15655)] [Thread 0xffffdffff180 (LWP 15655) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15652 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 10c57f4e-d705-4bc9-a681-de95b83608f9 Run started at : Mon Dec 9 15:29:23 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.0 0.0 0.4 148.5 -48.9 1.000e-01 253 3.21e-02 14.5 0.0 0.0 58.2 27.3 2.000e-01 152 2.44e-02 11.5 0.0 0.0 54.7 33.8 3.000e-01 150 2.44e-02 11.3 0.0 0.0 55.2 33.5 4.000e-01 155 2.45e-02 11.7 0.0 0.0 55.1 33.2 5.000e-01 139 2.41e-02 10.7 0.0 0.0 56.4 32.9 6.000e-01 124 2.41e-02 9.5 0.0 0.0 57.3 33.2 7.000e-01 130 2.43e-02 9.9 0.0 0.0 57.1 33.1 8.000e-01 163 2.50e-02 12.0 0.0 0.0 55.5 32.5 9.000e-01 142 2.46e-02 10.8 0.0 0.0 56.6 32.6 1.000e+00 176 2.51e-02 12.9 0.0 0.0 54.8 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:29:23 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15654) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15652) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15664)] [New Thread 0xffffdffff180 (LWP 15665)] [Thread 0xffffdffff180 (LWP 15665) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15662 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 39e28c5d-e251-44cd-b708-b085f2c919e5 Run started at : Mon Dec 9 15:29:37 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.3 150.1 -50.5 1.000e-01 253 3.26e-02 14.2 0.0 0.0 58.4 27.4 2.000e-01 152 2.48e-02 11.3 0.0 0.0 55.5 33.1 3.000e-01 150 2.49e-02 11.1 0.0 0.0 56.0 32.8 4.000e-01 155 2.49e-02 11.5 0.0 0.0 55.7 32.8 5.000e-01 139 2.47e-02 10.4 0.0 0.0 56.3 33.2 6.000e-01 124 2.43e-02 9.5 0.0 0.0 57.5 33.0 7.000e-01 130 2.45e-02 9.8 0.0 0.0 57.0 33.2 8.000e-01 163 2.50e-02 12.0 0.0 0.0 55.9 32.1 9.000e-01 142 2.47e-02 10.7 0.0 0.0 56.8 32.5 1.000e+00 176 2.55e-02 12.7 0.0 0.0 55.4 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:29:38 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15664) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15662) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15674)] [New Thread 0xffffdffff180 (LWP 15675)] [Thread 0xffffdffff180 (LWP 15675) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15672 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 5f7804a4-07db-47f7-a36b-77e8bd586f5b Run started at : Mon Dec 9 15:29:52 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.1 0.0 0.3 149.0 -49.4 1.000e-01 253 3.23e-02 14.3 0.0 0.0 58.5 27.2 2.000e-01 152 2.44e-02 11.5 0.0 0.0 54.9 33.6 3.000e-01 150 2.42e-02 11.4 0.0 0.0 55.3 33.3 4.000e-01 155 2.47e-02 11.6 0.0 0.0 55.1 33.3 5.000e-01 139 2.44e-02 10.6 0.0 0.0 56.5 32.9 6.000e-01 124 2.42e-02 9.5 0.0 0.0 56.8 33.7 7.000e-01 130 2.40e-02 10.0 0.0 0.0 56.4 33.6 8.000e-01 163 2.49e-02 12.1 0.0 0.0 55.1 32.9 9.000e-01 142 2.45e-02 10.7 0.0 0.0 56.3 33.0 1.000e+00 176 2.53e-02 12.7 0.0 0.0 54.4 32.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:29:52 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15674) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15672) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15684)] [New Thread 0xffffdffff180 (LWP 15685)] [Thread 0xffffdffff180 (LWP 15685) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15682 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: aa5cad27-f91d-4e59-864b-e3e37927b38e Run started at : Mon Dec 9 15:30:07 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.4 150.0 -50.5 1.000e-01 253 3.28e-02 14.1 0.0 0.0 58.2 27.6 2.000e-01 152 2.46e-02 11.4 0.0 0.0 55.1 33.5 3.000e-01 150 2.45e-02 11.4 0.0 0.0 55.2 33.4 4.000e-01 155 2.48e-02 11.5 0.0 0.0 54.9 33.6 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.0 33.5 6.000e-01 124 2.41e-02 9.5 0.0 0.0 56.8 33.7 7.000e-01 130 2.44e-02 9.9 0.0 0.0 56.3 33.8 8.000e-01 163 2.52e-02 12.0 0.0 0.0 55.3 32.7 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.5 32.9 1.000e+00 176 2.52e-02 12.9 0.0 0.0 54.9 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:30:07 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15684) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15682) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15694)] [New Thread 0xffffdffff180 (LWP 15695)] [Thread 0xffffdffff180 (LWP 15695) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15692 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 70026762-d57e-4ca2-be5e-5931543756fc Run started at : Mon Dec 9 15:30:22 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.3 148.3 -48.7 1.000e-01 253 3.23e-02 14.4 0.0 0.0 58.1 27.5 2.000e-01 152 2.47e-02 11.2 0.0 0.0 55.1 33.7 3.000e-01 150 2.48e-02 11.2 0.0 0.0 56.0 32.8 4.000e-01 155 2.49e-02 11.5 0.0 0.0 55.3 33.2 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.2 33.2 6.000e-01 124 2.46e-02 9.4 0.0 0.0 56.6 34.0 7.000e-01 130 2.46e-02 9.8 0.0 0.0 56.9 33.3 8.000e-01 163 2.55e-02 11.9 0.0 0.0 54.8 33.3 9.000e-01 142 2.44e-02 10.8 0.0 0.0 55.8 33.4 1.000e+00 176 2.54e-02 12.7 0.0 0.0 54.9 32.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:30:22 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15694) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15692) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15704)] [New Thread 0xffffdffff180 (LWP 15705)] [Thread 0xffffdffff180 (LWP 15705) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15702 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: a24c4d8c-296c-438d-8c37-897e9017d727 Run started at : Mon Dec 9 15:30:37 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.0 0.0 0.4 149.1 -49.6 1.000e-01 253 3.23e-02 14.3 0.0 0.0 58.2 27.5 2.000e-01 152 2.47e-02 11.3 0.0 0.0 54.8 33.9 3.000e-01 150 2.47e-02 11.2 0.0 0.0 55.2 33.6 4.000e-01 155 2.49e-02 11.5 0.0 0.0 55.1 33.4 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.4 33.2 6.000e-01 124 2.42e-02 9.4 0.0 0.0 57.0 33.7 7.000e-01 130 2.45e-02 9.8 0.0 0.0 56.8 33.3 8.000e-01 163 2.50e-02 11.9 0.0 0.0 55.5 32.6 9.000e-01 142 2.46e-02 10.7 0.0 0.0 56.4 32.9 1.000e+00 176 2.55e-02 12.7 0.0 0.0 55.0 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:30:37 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15704) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15702) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15714)] [New Thread 0xffffdffff180 (LWP 15715)] [Thread 0xffffdffff180 (LWP 15715) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15712 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 8b907e80-b1d8-47e8-9e6d-e5f81ea4b198 Run started at : Mon Dec 9 15:30:52 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.13e-02 0.1 0.0 0.3 146.9 -47.4 1.000e-01 253 3.28e-02 14.1 0.0 0.0 58.6 27.3 2.000e-01 152 2.53e-02 11.1 0.0 0.0 55.8 33.2 3.000e-01 150 2.53e-02 11.0 0.0 0.0 55.7 33.3 4.000e-01 155 2.51e-02 11.4 0.0 0.0 55.6 33.0 5.000e-01 139 2.47e-02 10.4 0.0 0.0 55.9 33.7 6.000e-01 124 2.45e-02 9.3 0.0 0.0 57.4 33.3 7.000e-01 130 2.48e-02 9.7 0.0 0.0 57.3 33.0 8.000e-01 163 2.54e-02 11.9 0.0 0.0 56.0 32.1 9.000e-01 142 2.51e-02 10.5 0.0 0.0 56.3 33.3 1.000e+00 176 2.64e-02 12.2 0.0 0.0 56.0 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:30:52 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15714) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15712) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15724)] [New Thread 0xffffdffff180 (LWP 15725)] [Thread 0xffffdffff180 (LWP 15725) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15722 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 4ea60e72-97d2-4845-95bf-c86239424796 Run started at : Mon Dec 9 15:31:06 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.4 149.1 -49.6 1.000e-01 253 3.24e-02 14.2 0.0 0.0 58.7 27.1 2.000e-01 152 2.43e-02 11.5 0.0 0.0 54.7 33.8 3.000e-01 150 2.43e-02 11.5 0.0 0.0 55.5 33.0 4.000e-01 155 2.46e-02 11.6 0.0 0.0 55.2 33.1 5.000e-01 139 2.45e-02 10.5 0.0 0.0 56.1 33.4 6.000e-01 124 2.45e-02 9.4 0.0 0.0 57.6 33.0 7.000e-01 130 2.46e-02 9.9 0.0 0.0 57.1 33.0 8.000e-01 163 2.51e-02 11.9 0.0 0.0 55.8 32.2 9.000e-01 142 2.51e-02 10.5 0.0 0.0 57.0 32.5 1.000e+00 176 2.57e-02 12.6 0.0 0.0 55.1 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:31:07 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15724) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15722) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15734)] [New Thread 0xffffdffff180 (LWP 15735)] [Thread 0xffffdffff180 (LWP 15735) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15732 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 45a35e49-4166-4cb6-86ac-1583ccd8c12b Run started at : Mon Dec 9 15:31:21 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.3 148.6 -49.0 1.000e-01 253 3.29e-02 14.0 0.0 0.0 58.7 27.3 2.000e-01 152 2.49e-02 11.3 0.0 0.0 55.4 33.3 3.000e-01 150 2.49e-02 11.2 0.0 0.0 56.0 32.8 4.000e-01 155 2.51e-02 11.4 0.0 0.0 55.8 32.7 5.000e-01 139 2.48e-02 10.4 0.0 0.0 56.6 33.0 6.000e-01 124 2.47e-02 9.4 0.0 0.0 58.0 32.6 7.000e-01 130 2.50e-02 9.7 0.0 0.0 57.5 32.8 8.000e-01 163 2.55e-02 11.7 0.0 0.0 55.9 32.4 9.000e-01 142 2.50e-02 10.6 0.0 0.0 56.5 32.9 1.000e+00 176 2.60e-02 12.4 0.0 0.0 55.3 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:31:22 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15734) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15732) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15744)] [New Thread 0xffffdffff180 (LWP 15745)] [Thread 0xffffdffff180 (LWP 15745) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15742 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 10810ae4-2eed-4d86-a8be-544c29d1fb52 Run started at : Mon Dec 9 15:31:36 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.1 0.0 0.3 149.7 -50.1 1.000e-01 253 3.21e-02 14.4 0.0 0.0 58.4 27.2 2.000e-01 152 2.46e-02 11.4 0.0 0.0 54.8 33.8 3.000e-01 150 2.43e-02 11.4 0.0 0.0 55.6 33.0 4.000e-01 155 2.46e-02 11.6 0.0 0.0 55.3 33.1 5.000e-01 139 2.44e-02 10.5 0.0 0.0 56.3 33.2 6.000e-01 124 2.40e-02 9.6 0.0 0.0 56.9 33.4 7.000e-01 130 2.41e-02 10.0 0.0 0.0 56.8 33.1 8.000e-01 163 2.50e-02 12.0 0.0 0.0 55.4 32.6 9.000e-01 142 2.44e-02 10.8 0.0 0.0 56.0 33.2 1.000e+00 176 2.54e-02 12.7 0.0 0.0 54.7 32.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:31:36 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15744) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15742) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15754)] [New Thread 0xffffdffff180 (LWP 15755)] [Thread 0xffffdffff180 (LWP 15755) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15752 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: e733adbc-a214-47c4-8886-ad68db5c4830 Run started at : Mon Dec 9 15:31:51 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.4 148.6 -49.1 1.000e-01 253 3.29e-02 14.2 0.0 0.0 58.6 27.2 2.000e-01 152 2.48e-02 11.3 0.0 0.0 55.1 33.5 3.000e-01 150 2.48e-02 11.1 0.0 0.0 55.7 33.2 4.000e-01 155 2.53e-02 11.3 0.0 0.0 55.6 33.0 5.000e-01 139 2.45e-02 10.4 0.0 0.0 56.5 33.1 6.000e-01 124 2.47e-02 9.3 0.0 0.0 57.4 33.3 7.000e-01 130 2.43e-02 9.9 0.0 0.0 57.2 32.9 8.000e-01 163 2.56e-02 11.8 0.0 0.0 55.9 32.3 9.000e-01 142 2.51e-02 10.4 0.0 0.0 57.1 32.5 1.000e+00 176 2.59e-02 12.4 0.0 0.0 55.7 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:31:51 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15754) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15752) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15764)] [New Thread 0xffffdffff180 (LWP 15765)] [Thread 0xffffdffff180 (LWP 15765) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15762 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 5e96ddd9-ac9a-4bde-9526-76b38c346aa3 Run started at : Mon Dec 9 15:32:06 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.4 147.9 -48.4 1.000e-01 253 3.23e-02 14.4 0.0 0.0 58.1 27.5 2.000e-01 152 2.46e-02 11.3 0.0 0.0 54.6 34.1 3.000e-01 150 2.44e-02 11.3 0.0 0.0 55.1 33.5 4.000e-01 155 2.47e-02 11.6 0.0 0.0 55.1 33.3 5.000e-01 139 2.44e-02 10.5 0.0 0.0 56.1 33.3 6.000e-01 124 2.41e-02 9.5 0.0 0.0 57.2 33.3 7.000e-01 130 2.45e-02 9.7 0.0 0.0 56.6 33.7 8.000e-01 163 2.54e-02 11.9 0.0 0.0 55.8 32.3 9.000e-01 142 2.53e-02 10.4 0.0 0.0 57.1 32.5 1.000e+00 176 2.59e-02 12.5 0.0 0.0 55.4 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:32:06 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15764) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15762) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15774)] [New Thread 0xffffdffff180 (LWP 15775)] [Thread 0xffffdffff180 (LWP 15775) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15772 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 4533b399-b9be-4f82-befc-f2587c83965a Run started at : Mon Dec 9 15:32:20 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.12e-02 0.1 0.0 0.3 148.0 -48.4 1.000e-01 253 3.27e-02 14.2 0.0 0.0 58.8 26.9 2.000e-01 152 2.45e-02 11.5 0.0 0.0 54.9 33.6 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.6 33.0 4.000e-01 155 2.47e-02 11.5 0.0 0.0 55.2 33.2 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.4 33.1 6.000e-01 124 2.44e-02 9.4 0.0 0.0 57.0 33.5 7.000e-01 130 2.42e-02 9.9 0.0 0.0 56.8 33.3 8.000e-01 163 2.53e-02 11.8 0.0 0.0 55.2 33.0 9.000e-01 142 2.47e-02 10.5 0.0 0.0 56.2 33.3 1.000e+00 176 2.57e-02 12.6 0.0 0.0 55.1 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:32:21 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15774) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15772) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15784)] [New Thread 0xffffdffff180 (LWP 15785)] [Thread 0xffffdffff180 (LWP 15785) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15782 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 0c1eac97-b6b3-4dbc-902a-1133f2968e3a Run started at : Mon Dec 9 15:32:35 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.1 0.0 0.4 148.7 -49.1 1.000e-01 253 3.31e-02 14.0 0.0 0.0 58.6 27.4 2.000e-01 152 2.53e-02 11.1 0.0 0.0 55.6 33.3 3.000e-01 150 2.52e-02 11.0 0.0 0.0 56.0 33.0 4.000e-01 155 2.52e-02 11.3 0.0 0.0 56.0 32.7 5.000e-01 139 2.50e-02 10.3 0.0 0.0 56.9 32.9 6.000e-01 124 2.48e-02 9.4 0.0 0.0 57.3 33.4 7.000e-01 130 2.49e-02 9.6 0.0 0.0 57.5 32.9 8.000e-01 163 2.57e-02 11.7 0.0 0.0 56.0 32.3 9.000e-01 142 2.53e-02 10.4 0.0 0.0 56.6 33.0 1.000e+00 176 2.60e-02 12.4 0.0 0.0 55.4 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:32:35 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15784) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15782) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15794)] [New Thread 0xffffdffff180 (LWP 15795)] [Thread 0xffffdffff180 (LWP 15795) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15792 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: c05b71f9-21e0-4a26-9f7a-5d34d556a997 Run started at : Mon Dec 9 15:32:50 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 -0.0 0.0 0.4 149.1 -49.5 1.000e-01 253 3.22e-02 14.3 0.0 0.0 58.1 27.6 2.000e-01 152 2.45e-02 11.4 0.0 0.0 54.5 34.1 3.000e-01 150 2.43e-02 11.5 0.0 0.0 55.0 33.5 4.000e-01 155 2.48e-02 11.6 0.0 0.0 55.7 32.6 5.000e-01 139 2.45e-02 10.9 0.0 0.0 56.3 32.8 6.000e-01 124 2.42e-02 9.5 0.0 0.0 57.0 33.5 7.000e-01 130 2.44e-02 9.9 0.0 0.0 56.8 33.4 8.000e-01 163 2.50e-02 12.0 0.0 0.0 55.1 32.9 9.000e-01 142 2.44e-02 10.8 0.0 0.0 56.4 32.9 1.000e+00 176 2.55e-02 12.7 0.0 0.0 55.0 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:32:50 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15794) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15792) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15804)] [New Thread 0xffffdffff180 (LWP 15805)] [Thread 0xffffdffff180 (LWP 15805) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15802 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 829f6ea8-2f73-4e98-83fa-b874febd7d94 Run started at : Mon Dec 9 15:33:05 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 -0.0 0.0 0.4 148.4 -48.8 1.000e-01 253 3.20e-02 14.4 0.0 0.0 58.2 27.4 2.000e-01 152 2.44e-02 11.5 0.0 0.0 54.5 34.0 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.5 33.2 4.000e-01 155 2.44e-02 11.8 0.0 0.0 54.9 33.3 5.000e-01 139 2.40e-02 10.6 0.0 0.0 56.4 32.9 6.000e-01 124 2.38e-02 9.5 0.0 0.0 56.5 33.9 7.000e-01 130 2.39e-02 10.1 0.0 0.0 56.3 33.6 8.000e-01 163 2.47e-02 12.1 0.0 0.0 54.7 33.2 9.000e-01 142 2.42e-02 10.8 0.0 0.0 56.1 33.1 1.000e+00 176 2.53e-02 12.8 0.0 0.0 54.4 32.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:33:05 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15804) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15802) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15814)] [New Thread 0xffffdffff180 (LWP 15815)] [Thread 0xffffdffff180 (LWP 15815) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15812 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 45733f33-3d22-4468-9120-e36a6e3d4bc8 Run started at : Mon Dec 9 15:33:20 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.0 0.0 0.4 149.1 -49.5 1.000e-01 253 3.28e-02 14.0 0.0 0.0 58.3 27.6 2.000e-01 152 2.46e-02 11.4 0.0 0.0 55.1 33.4 3.000e-01 150 2.45e-02 11.2 0.0 0.0 55.7 33.1 4.000e-01 155 2.49e-02 11.6 0.0 0.0 55.7 32.8 5.000e-01 139 2.47e-02 10.4 0.0 0.0 57.0 32.6 6.000e-01 124 2.48e-02 9.3 0.0 0.0 57.5 33.2 7.000e-01 130 2.45e-02 9.8 0.0 0.0 57.1 33.0 8.000e-01 163 2.56e-02 11.7 0.0 0.0 56.1 32.2 9.000e-01 142 2.51e-02 10.5 0.0 0.0 57.0 32.4 1.000e+00 176 2.60e-02 12.5 0.0 0.0 56.0 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:33:20 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15814) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15812) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15824)] [New Thread 0xffffdffff180 (LWP 15825)] [Thread 0xffffdffff180 (LWP 15825) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15822 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3d30, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3d30) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3d30, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3d30, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3d30) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3d30, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 5e6a26d1-eb8f-4b8a-8b86-5e2c7048d620 Run started at : Mon Dec 9 15:33:34 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.4 150.1 -50.6 1.000e-01 253 3.26e-02 14.3 0.0 0.0 58.3 27.4 2.000e-01 152 2.48e-02 11.4 0.0 0.0 55.5 33.1 3.000e-01 150 2.49e-02 11.1 0.0 0.0 55.4 33.4 4.000e-01 155 2.47e-02 11.5 0.0 0.0 55.2 33.2 5.000e-01 139 2.48e-02 10.4 0.0 0.0 56.4 33.2 6.000e-01 124 2.48e-02 9.3 0.0 0.0 57.6 33.2 7.000e-01 130 2.50e-02 9.7 0.0 0.0 57.3 33.1 8.000e-01 163 2.60e-02 11.6 0.0 0.0 55.4 33.0 9.000e-01 142 2.54e-02 10.3 0.0 0.0 56.6 33.1 1.000e+00 176 2.64e-02 12.2 0.0 0.0 56.0 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:33:35 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15824) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15822) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15834)] [New Thread 0xffffdffff180 (LWP 15835)] [Thread 0xffffdffff180 (LWP 15835) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15832 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 04c5a06f-27c1-44c9-b097-71577f7cd5dd Run started at : Mon Dec 9 15:33:49 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.3 148.5 -48.9 1.000e-01 253 3.25e-02 14.4 0.0 0.0 58.6 27.0 2.000e-01 152 2.44e-02 11.5 0.0 0.0 54.4 34.1 3.000e-01 150 2.43e-02 11.5 0.0 0.0 55.0 33.5 4.000e-01 155 2.48e-02 11.5 0.0 0.0 55.4 33.1 5.000e-01 139 2.42e-02 10.6 0.0 0.0 56.2 33.1 6.000e-01 124 2.43e-02 9.4 0.0 0.0 57.5 33.1 7.000e-01 130 2.45e-02 9.8 0.0 0.0 56.9 33.3 8.000e-01 163 2.51e-02 11.9 0.0 0.0 55.0 33.1 9.000e-01 142 2.46e-02 10.7 0.0 0.0 56.2 33.1 1.000e+00 176 2.53e-02 12.9 0.0 0.0 54.6 32.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:33:50 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15834) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15832) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15844)] [New Thread 0xffffdffff180 (LWP 15845)] [Thread 0xffffdffff180 (LWP 15845) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15842 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: b3a43ac8-08c0-4b6b-a665-25acfb0af556 Run started at : Mon Dec 9 15:34:04 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.4 149.1 -49.5 1.000e-01 253 3.25e-02 14.2 0.0 0.0 58.3 27.5 2.000e-01 152 2.45e-02 11.4 0.0 0.0 55.1 33.5 3.000e-01 150 2.47e-02 11.2 0.0 0.0 55.6 33.2 4.000e-01 155 2.49e-02 11.5 0.0 0.0 55.5 32.9 5.000e-01 139 2.47e-02 10.5 0.0 0.0 56.3 33.2 6.000e-01 124 2.43e-02 9.4 0.0 0.0 57.0 33.6 7.000e-01 130 2.45e-02 9.8 0.0 0.0 57.1 33.1 8.000e-01 163 2.52e-02 11.9 0.0 0.0 55.5 32.6 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.7 32.7 1.000e+00 176 2.56e-02 12.6 0.0 0.0 55.0 32.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:34:04 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15844) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15842) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15854)] [New Thread 0xffffdffff180 (LWP 15855)] [Thread 0xffffdffff180 (LWP 15855) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15852 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 4551a705-dfed-4916-946d-20571d2efd72 Run started at : Mon Dec 9 15:34:19 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.0 0.0 0.4 149.3 -49.8 1.000e-01 253 3.26e-02 14.3 0.0 0.0 58.3 27.4 2.000e-01 152 2.46e-02 11.4 0.0 0.0 54.5 34.1 3.000e-01 150 2.43e-02 11.4 0.0 0.0 55.1 33.5 4.000e-01 155 2.45e-02 11.7 0.0 0.0 55.4 32.9 5.000e-01 139 2.45e-02 10.5 0.0 0.0 56.0 33.5 6.000e-01 124 2.42e-02 9.6 0.0 0.0 56.7 33.7 7.000e-01 130 2.45e-02 9.9 0.0 0.0 56.8 33.4 8.000e-01 163 2.52e-02 11.8 0.0 0.0 55.5 32.7 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.0 33.4 1.000e+00 176 2.55e-02 12.7 0.0 0.0 54.4 32.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:34:19 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15854) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15852) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15864)] [New Thread 0xffffdffff180 (LWP 15865)] [Thread 0xffffdffff180 (LWP 15865) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15862 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 13fd4353-62f4-44ec-84e1-454f6d89013d Run started at : Mon Dec 9 15:34:34 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.4 148.4 -48.9 1.000e-01 253 3.23e-02 14.3 0.0 0.0 58.5 27.2 2.000e-01 152 2.46e-02 11.4 0.0 0.0 54.7 33.8 3.000e-01 150 2.45e-02 11.3 0.0 0.0 55.4 33.3 4.000e-01 155 2.49e-02 11.4 0.0 0.0 55.4 33.2 5.000e-01 139 2.48e-02 10.5 0.0 0.0 56.0 33.5 6.000e-01 124 2.44e-02 9.5 0.0 0.0 57.0 33.5 7.000e-01 130 2.41e-02 10.1 0.0 0.0 56.4 33.5 8.000e-01 163 2.51e-02 12.0 0.0 0.0 55.4 32.6 9.000e-01 142 2.48e-02 10.6 0.0 0.0 56.7 32.7 1.000e+00 176 2.58e-02 12.5 0.0 0.0 55.3 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:34:34 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15864) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15862) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15874)] [New Thread 0xffffdffff180 (LWP 15875)] [Thread 0xffffdffff180 (LWP 15875) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15872 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: ca7f5661-705d-4ade-8482-5f08859fe7aa Run started at : Mon Dec 9 15:34:49 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.4 149.2 -49.6 1.000e-01 253 3.21e-02 14.5 0.0 0.0 58.1 27.4 2.000e-01 152 2.46e-02 11.4 0.0 0.0 55.1 33.5 3.000e-01 150 2.41e-02 11.5 0.0 0.0 54.5 34.0 4.000e-01 155 2.45e-02 11.8 0.0 0.0 55.0 33.2 5.000e-01 139 2.39e-02 10.8 0.0 0.0 55.6 33.6 6.000e-01 124 2.37e-02 9.7 0.0 0.0 56.5 33.8 7.000e-01 130 2.40e-02 10.0 0.0 0.0 56.5 33.5 8.000e-01 163 2.50e-02 12.0 0.0 0.0 54.9 33.1 9.000e-01 142 2.46e-02 10.7 0.0 0.0 56.5 32.8 1.000e+00 176 2.51e-02 12.8 0.0 0.0 54.0 33.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:34:49 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15874) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15872) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15884)] [New Thread 0xffffdffff180 (LWP 15885)] [Thread 0xffffdffff180 (LWP 15885) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15882 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 9976449a-a2c5-4044-892e-0c221223c6a1 Run started at : Mon Dec 9 15:35:03 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 -0.0 0.0 0.4 149.5 -49.9 1.000e-01 253 3.23e-02 14.4 0.0 0.0 58.2 27.4 2.000e-01 152 2.43e-02 11.4 0.0 0.0 54.8 33.7 3.000e-01 150 2.40e-02 11.5 0.0 0.0 54.7 33.9 4.000e-01 155 2.43e-02 11.8 0.0 0.0 54.9 33.3 5.000e-01 139 2.42e-02 10.6 0.0 0.0 56.0 33.4 6.000e-01 124 2.39e-02 9.5 0.0 0.0 56.4 34.1 7.000e-01 130 2.41e-02 10.0 0.0 0.0 56.6 33.4 8.000e-01 163 2.46e-02 12.1 0.0 0.0 54.9 33.0 9.000e-01 142 2.43e-02 10.8 0.0 0.0 55.8 33.5 1.000e+00 176 2.52e-02 12.8 0.0 0.0 54.6 32.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:35:04 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15884) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15882) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15894)] [New Thread 0xffffdffff180 (LWP 15895)] [Thread 0xffffdffff180 (LWP 15895) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15892 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21c890) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21dc80) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ac18, comm=0xaaaaab2151b0) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21dc80) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ac18, comm=0xaaaaab2151b0) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21dc80) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ac18, comm=0xaaaaab2151b0) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21dc80) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ac18, comm=0xaaaaab2151b0) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21dc80) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ac18, comm=0xaaaaab2151b0) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21dc80) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: c0a0681e-df11-498f-86c8-8432078755a3 Run started at : Mon Dec 9 15:35:18 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.12e-02 0.1 0.0 0.3 148.3 -48.8 1.000e-01 253 3.26e-02 14.4 0.0 0.0 58.6 27.0 2.000e-01 152 2.45e-02 11.4 0.0 0.0 54.7 33.8 3.000e-01 150 2.44e-02 11.3 0.0 0.0 55.5 33.1 4.000e-01 155 2.46e-02 11.5 0.0 0.0 55.3 33.2 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.4 33.2 6.000e-01 124 2.43e-02 9.5 0.0 0.0 57.2 33.3 7.000e-01 130 2.44e-02 9.9 0.0 0.0 56.9 33.2 8.000e-01 163 2.54e-02 11.9 0.0 0.0 55.6 32.6 9.000e-01 142 2.53e-02 10.7 0.0 0.0 56.5 32.8 1.000e+00 176 2.58e-02 12.5 0.0 0.0 55.3 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:35:18 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15894) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15892) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15904)] [New Thread 0xffffdffff180 (LWP 15905)] [Thread 0xffffdffff180 (LWP 15905) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15902 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 6563afb6-898d-4c20-b62d-e18f4ae988b6 Run started at : Mon Dec 9 15:35:33 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.0 0.0 0.4 148.9 -49.3 1.000e-01 253 3.22e-02 14.4 0.0 0.0 58.2 27.4 2.000e-01 152 2.44e-02 11.5 0.0 0.0 55.1 33.4 3.000e-01 150 2.40e-02 11.5 0.0 0.0 54.9 33.6 4.000e-01 155 2.45e-02 11.6 0.0 0.0 55.1 33.3 5.000e-01 139 2.42e-02 10.5 0.0 0.0 55.9 33.6 6.000e-01 124 2.42e-02 9.5 0.0 0.0 56.8 33.6 7.000e-01 130 2.41e-02 10.0 0.0 0.0 56.6 33.4 8.000e-01 163 2.48e-02 12.1 0.0 0.0 55.0 32.9 9.000e-01 142 2.45e-02 10.8 0.0 0.0 55.6 33.7 1.000e+00 176 2.53e-02 12.8 0.0 0.0 54.6 32.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:35:33 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15904) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15902) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15914)] [New Thread 0xffffdffff180 (LWP 15915)] [Thread 0xffffdffff180 (LWP 15915) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15912 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: bfd92ffe-8cdc-480a-adef-554530555a79 Run started at : Mon Dec 9 15:35:48 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.3 148.7 -49.2 1.000e-01 253 3.22e-02 14.4 0.0 0.0 58.1 27.5 2.000e-01 152 2.48e-02 11.4 0.0 0.0 54.8 33.8 3.000e-01 150 2.46e-02 11.2 0.0 0.0 54.8 34.0 4.000e-01 155 2.46e-02 11.7 0.0 0.0 55.0 33.4 5.000e-01 139 2.40e-02 10.7 0.0 0.0 55.9 33.4 6.000e-01 124 2.39e-02 9.5 0.0 0.0 56.9 33.6 7.000e-01 130 2.43e-02 9.8 0.0 0.0 56.6 33.6 8.000e-01 163 2.50e-02 11.8 0.0 0.0 55.5 32.7 9.000e-01 142 2.48e-02 10.6 0.0 0.0 56.6 32.8 1.000e+00 176 2.54e-02 12.8 0.0 0.0 54.7 32.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:35:48 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15914) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15912) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15924)] [New Thread 0xffffdffff180 (LWP 15925)] [Thread 0xffffdffff180 (LWP 15925) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15922 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: cd2ae3f6-a859-4e99-9a78-a27dcc8bc27f Run started at : Mon Dec 9 15:36:03 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.1 0.0 0.3 148.1 -48.5 1.000e-01 253 3.29e-02 14.0 0.0 0.0 58.6 27.3 2.000e-01 152 2.49e-02 11.3 0.0 0.0 54.9 33.8 3.000e-01 150 2.50e-02 11.1 0.0 0.0 55.9 33.0 4.000e-01 155 2.50e-02 11.4 0.0 0.0 55.6 33.1 5.000e-01 139 2.48e-02 10.4 0.0 0.0 56.5 33.1 6.000e-01 124 2.45e-02 9.5 0.0 0.0 57.2 33.3 7.000e-01 130 2.47e-02 9.8 0.0 0.0 57.3 32.9 8.000e-01 163 2.59e-02 11.6 0.0 0.0 56.0 32.4 9.000e-01 142 2.53e-02 10.5 0.0 0.0 56.9 32.6 1.000e+00 176 2.60e-02 12.5 0.0 0.0 55.6 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:36:03 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15924) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15922) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15934)] [New Thread 0xffffdffff180 (LWP 15935)] [Thread 0xffffdffff180 (LWP 15935) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15932 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 9d751bbb-3060-4e68-a942-3dc0ad6f5794 Run started at : Mon Dec 9 15:36:18 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 -0.0 0.0 0.4 150.3 -50.7 1.000e-01 253 3.24e-02 14.3 0.0 0.0 58.5 27.2 2.000e-01 152 2.47e-02 11.4 0.0 0.0 54.6 33.9 3.000e-01 150 2.47e-02 11.1 0.0 0.0 55.6 33.3 4.000e-01 155 2.51e-02 11.4 0.0 0.0 55.4 33.2 5.000e-01 139 2.44e-02 10.5 0.0 0.0 56.1 33.4 6.000e-01 124 2.43e-02 9.5 0.0 0.0 57.2 33.3 7.000e-01 130 2.43e-02 10.0 0.0 0.0 56.6 33.4 8.000e-01 163 2.54e-02 11.7 0.0 0.0 55.9 32.4 9.000e-01 142 2.47e-02 10.6 0.0 0.0 56.7 32.7 1.000e+00 176 2.56e-02 12.6 0.0 0.0 55.5 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:36:18 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15934) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15932) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15944)] [New Thread 0xffffdffff180 (LWP 15945)] [Thread 0xffffdffff180 (LWP 15945) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15942 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: bedf7c44-9fe2-4765-b1d5-1719ff30102b Run started at : Mon Dec 9 15:36:32 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.14e-02 0.0 0.0 0.4 149.8 -50.2 1.000e-01 253 3.29e-02 14.1 0.0 0.0 58.3 27.7 2.000e-01 152 2.52e-02 11.2 0.0 0.0 54.7 34.1 3.000e-01 150 2.45e-02 11.2 0.0 0.0 55.2 33.6 4.000e-01 155 2.49e-02 11.5 0.0 0.0 55.6 32.9 5.000e-01 139 2.45e-02 10.5 0.0 0.0 56.1 33.5 6.000e-01 124 2.42e-02 9.5 0.0 0.0 56.7 33.8 7.000e-01 130 2.46e-02 9.7 0.0 0.0 56.9 33.4 8.000e-01 163 2.52e-02 11.9 0.0 0.0 55.2 32.9 9.000e-01 142 2.46e-02 10.7 0.0 0.0 56.1 33.2 1.000e+00 176 2.58e-02 12.5 0.0 0.0 55.4 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:36:33 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15944) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15942) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15954)] [New Thread 0xffffdffff180 (LWP 15955)] [Thread 0xffffdffff180 (LWP 15955) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15952 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 77c32cb7-4acb-406c-ab4a-9c997b38ae6c Run started at : Mon Dec 9 15:36:47 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.4 150.4 -50.8 1.000e-01 253 3.24e-02 14.3 0.0 0.0 58.4 27.3 2.000e-01 152 2.43e-02 11.5 0.0 0.0 54.5 34.0 3.000e-01 150 2.42e-02 11.5 0.0 0.0 55.0 33.5 4.000e-01 155 2.46e-02 11.6 0.0 0.0 55.2 33.1 5.000e-01 139 2.44e-02 10.4 0.0 0.0 56.1 33.4 6.000e-01 124 2.43e-02 9.4 0.0 0.0 56.8 33.8 7.000e-01 130 2.44e-02 9.9 0.0 0.0 56.3 33.8 8.000e-01 163 2.51e-02 11.9 0.0 0.0 55.9 32.2 9.000e-01 142 2.46e-02 10.7 0.0 0.0 56.2 33.1 1.000e+00 176 2.53e-02 12.8 0.0 0.0 54.6 32.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:36:47 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15954) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15952) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15964)] [New Thread 0xffffdffff180 (LWP 15965)] [Thread 0xffffdffff180 (LWP 15965) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15962 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 19014a37-fb6c-46b0-b7b8-b0b55db98a11 Run started at : Mon Dec 9 15:37:02 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.3 149.2 -49.6 1.000e-01 253 3.29e-02 14.1 0.0 0.0 58.6 27.2 2.000e-01 152 2.47e-02 11.4 0.0 0.0 55.3 33.3 3.000e-01 150 2.46e-02 11.2 0.0 0.0 55.3 33.5 4.000e-01 155 2.50e-02 11.4 0.0 0.0 56.0 32.7 5.000e-01 139 2.45e-02 10.5 0.0 0.0 56.4 33.1 6.000e-01 124 2.41e-02 9.6 0.0 0.0 57.0 33.4 7.000e-01 130 2.42e-02 10.0 0.0 0.0 56.5 33.4 8.000e-01 163 2.53e-02 11.8 0.0 0.0 55.7 32.5 9.000e-01 142 2.51e-02 10.5 0.0 0.0 56.6 32.9 1.000e+00 176 2.57e-02 12.6 0.0 0.0 55.1 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:37:02 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15964) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15962) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15974)] [New Thread 0xffffdffff180 (LWP 15975)] [Thread 0xffffdffff180 (LWP 15975) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15972 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 8c2638ba-d665-43dd-aa41-506c89ebe2ae Run started at : Mon Dec 9 15:37:17 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.12e-02 0.1 0.0 0.3 148.8 -49.2 1.000e-01 253 3.26e-02 14.2 0.0 0.0 58.7 27.1 2.000e-01 152 2.46e-02 11.4 0.0 0.0 54.9 33.6 3.000e-01 150 2.42e-02 11.5 0.0 0.0 54.8 33.7 4.000e-01 155 2.46e-02 11.6 0.0 0.0 55.1 33.3 5.000e-01 139 2.42e-02 10.6 0.0 0.0 56.2 33.2 6.000e-01 124 2.41e-02 9.6 0.0 0.0 56.4 34.0 7.000e-01 130 2.43e-02 9.9 0.0 0.0 56.9 33.2 8.000e-01 163 2.48e-02 12.2 0.0 0.0 54.9 33.0 9.000e-01 142 2.43e-02 10.8 0.0 0.0 56.3 32.9 1.000e+00 176 2.54e-02 12.7 0.0 0.0 54.8 32.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:37:17 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15974) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15972) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15984)] [New Thread 0xffffdffff180 (LWP 15985)] [Thread 0xffffdffff180 (LWP 15985) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15982 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 463629c5-f702-4779-8775-c625ccb14f47 Run started at : Mon Dec 9 15:37:32 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.0 0.0 0.4 149.5 -49.9 1.000e-01 253 3.22e-02 14.5 0.0 0.0 57.8 27.7 2.000e-01 152 2.46e-02 11.5 0.0 0.0 54.6 33.8 3.000e-01 150 2.44e-02 11.3 0.0 0.0 54.4 34.3 4.000e-01 155 2.45e-02 11.7 0.0 0.0 54.4 33.9 5.000e-01 139 2.42e-02 10.7 0.0 0.0 55.9 33.4 6.000e-01 124 2.37e-02 9.8 0.0 0.0 56.4 33.8 7.000e-01 130 2.40e-02 10.1 0.0 0.0 56.3 33.6 8.000e-01 163 2.49e-02 12.0 0.0 0.0 54.9 33.2 9.000e-01 142 2.46e-02 10.7 0.0 0.0 55.9 33.4 1.000e+00 176 2.52e-02 12.8 0.0 0.0 54.6 32.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:37:32 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15984) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15982) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 15994)] [New Thread 0xffffdffff180 (LWP 15995)] [Thread 0xffffdffff180 (LWP 15995) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 15992 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: c8ce5cf5-2784-4b4f-a3fd-4a27a00034d4 Run started at : Mon Dec 9 15:37:46 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.11e-02 0.0 0.0 0.4 149.4 -49.8 1.000e-01 253 3.28e-02 14.2 0.0 0.0 58.7 27.1 2.000e-01 152 2.47e-02 11.3 0.0 0.0 55.1 33.5 3.000e-01 150 2.47e-02 11.2 0.0 0.0 55.5 33.3 4.000e-01 155 2.50e-02 11.4 0.0 0.0 55.5 33.1 5.000e-01 139 2.45e-02 10.5 0.0 0.0 56.4 33.2 6.000e-01 124 2.44e-02 9.4 0.0 0.0 57.5 33.1 7.000e-01 130 2.46e-02 9.8 0.0 0.0 57.3 32.9 8.000e-01 163 2.53e-02 11.8 0.0 0.0 55.5 32.6 9.000e-01 142 2.49e-02 10.5 0.0 0.0 56.6 32.9 1.000e+00 176 2.57e-02 12.5 0.0 0.0 55.1 32.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:37:47 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 15994) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 15992) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16004)] [New Thread 0xffffdffff180 (LWP 16005)] [Thread 0xffffdffff180 (LWP 16005) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16002 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 9b97e55f-3325-495b-a581-f7c5af894eac Run started at : Mon Dec 9 15:38:01 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.4 148.8 -49.2 1.000e-01 253 3.28e-02 14.2 0.0 0.0 58.6 27.2 2.000e-01 152 2.50e-02 11.2 0.0 0.0 55.5 33.3 3.000e-01 150 2.49e-02 11.1 0.0 0.0 56.3 32.6 4.000e-01 155 2.54e-02 11.2 0.0 0.0 55.8 33.0 5.000e-01 139 2.45e-02 10.5 0.0 0.0 56.7 32.9 6.000e-01 124 2.46e-02 9.3 0.0 0.0 57.6 33.1 7.000e-01 130 2.51e-02 9.6 0.0 0.0 57.7 32.7 8.000e-01 163 2.59e-02 11.6 0.0 0.0 56.2 32.1 9.000e-01 142 2.54e-02 10.4 0.0 0.0 56.8 32.8 1.000e+00 176 2.61e-02 12.3 0.0 0.0 55.8 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:38:01 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16004) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16002) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16014)] [New Thread 0xffffdffff180 (LWP 16015)] [Thread 0xffffdffff180 (LWP 16015) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16012 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: ccd40ad3-8a08-48d1-a48a-4e584f89269e Run started at : Mon Dec 9 15:38:16 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.3 149.1 -49.5 1.000e-01 253 3.25e-02 14.2 0.0 0.0 58.4 27.4 2.000e-01 152 2.46e-02 11.4 0.0 0.0 54.6 34.0 3.000e-01 150 2.43e-02 11.3 0.0 0.0 55.6 33.1 4.000e-01 155 2.49e-02 11.5 0.0 0.0 55.9 32.6 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.6 32.9 6.000e-01 124 2.41e-02 9.5 0.0 0.0 57.3 33.1 7.000e-01 130 2.42e-02 10.0 0.0 0.0 57.2 32.8 8.000e-01 163 2.51e-02 12.0 0.0 0.0 55.8 32.2 9.000e-01 142 2.46e-02 10.6 0.0 0.0 56.9 32.5 1.000e+00 176 2.55e-02 12.6 0.0 0.0 55.6 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:38:16 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16014) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16012) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16024)] [New Thread 0xffffdffff180 (LWP 16025)] [Thread 0xffffdffff180 (LWP 16025) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16022 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe584c0a0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe584c0a0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe584c0a0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe584c0a0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe584c0a0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe584c0a0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 9acffc51-7c39-4ec9-a16b-d4781d2850df Run started at : Mon Dec 9 15:38:31 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.2 0.0 0.3 149.3 -49.8 1.000e-01 253 3.24e-02 14.4 0.0 0.0 58.1 27.6 2.000e-01 152 2.45e-02 11.4 0.0 0.0 54.5 34.0 3.000e-01 150 2.42e-02 11.5 0.0 0.0 54.6 33.9 4.000e-01 155 2.45e-02 11.7 0.0 0.0 55.1 33.2 5.000e-01 139 2.45e-02 10.5 0.0 0.0 56.5 33.0 6.000e-01 124 2.39e-02 9.7 0.0 0.0 56.8 33.5 7.000e-01 130 2.40e-02 10.1 0.0 0.0 56.8 33.2 8.000e-01 163 2.49e-02 12.0 0.0 0.0 55.2 32.7 9.000e-01 142 2.45e-02 10.6 0.0 0.0 56.6 32.7 1.000e+00 176 2.53e-02 12.7 0.0 0.0 54.7 32.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:38:31 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16024) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16022) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16034)] [New Thread 0xffffdffff180 (LWP 16035)] [Thread 0xffffdffff180 (LWP 16035) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16032 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 32bd206b-b7f8-44fa-ad2d-1be14969ddef Run started at : Mon Dec 9 15:38:45 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.0 0.0 0.4 149.1 -49.4 1.000e-01 253 3.22e-02 14.4 0.0 0.0 58.0 27.5 2.000e-01 152 2.44e-02 11.6 0.0 0.0 54.4 33.9 3.000e-01 150 2.42e-02 11.5 0.0 0.0 54.8 33.8 4.000e-01 155 2.45e-02 11.6 0.0 0.0 54.9 33.5 5.000e-01 139 2.43e-02 10.6 0.0 0.0 56.0 33.4 6.000e-01 124 2.41e-02 9.5 0.0 0.0 57.1 33.4 7.000e-01 130 2.44e-02 9.8 0.0 0.0 56.7 33.5 8.000e-01 163 2.45e-02 12.3 0.0 0.0 54.8 32.9 9.000e-01 142 2.42e-02 10.9 0.0 0.0 55.8 33.4 1.000e+00 176 2.52e-02 12.8 0.0 0.0 54.8 32.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:38:46 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16034) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16032) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16044)] [New Thread 0xffffdffff180 (LWP 16045)] [Thread 0xffffdffff180 (LWP 16045) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16042 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 0aec520b-05d6-4aee-a3a8-ad406bc6de6e Run started at : Mon Dec 9 15:39:00 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.3 149.7 -50.1 1.000e-01 253 3.21e-02 14.4 0.0 0.0 58.1 27.5 2.000e-01 152 2.45e-02 11.4 0.0 0.0 55.0 33.5 3.000e-01 150 2.43e-02 11.4 0.0 0.0 55.4 33.2 4.000e-01 155 2.44e-02 11.7 0.0 0.0 55.4 32.9 5.000e-01 139 2.42e-02 10.6 0.0 0.0 56.3 33.1 6.000e-01 124 2.41e-02 9.6 0.0 0.0 57.4 33.0 7.000e-01 130 2.43e-02 10.0 0.0 0.0 57.4 32.7 8.000e-01 163 2.50e-02 12.0 0.0 0.0 55.7 32.3 9.000e-01 142 2.47e-02 10.6 0.0 0.0 56.6 32.9 1.000e+00 176 2.57e-02 12.6 0.0 0.0 55.3 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:39:00 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16044) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16042) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16054)] [New Thread 0xffffdffff180 (LWP 16055)] [Thread 0xffffdffff180 (LWP 16055) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16052 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 5a7b510e-ec2d-4ac1-a05b-6ae2728d503f Run started at : Mon Dec 9 15:39:15 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.4 149.1 -49.5 1.000e-01 253 3.25e-02 14.3 0.0 0.0 58.6 27.1 2.000e-01 152 2.46e-02 11.3 0.0 0.0 54.8 33.8 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.4 33.2 4.000e-01 155 2.47e-02 11.5 0.0 0.0 55.7 32.8 5.000e-01 139 2.43e-02 10.6 0.0 0.0 56.2 33.2 6.000e-01 124 2.44e-02 9.5 0.0 0.0 57.4 33.1 7.000e-01 130 2.45e-02 9.8 0.0 0.0 57.4 32.8 8.000e-01 163 2.49e-02 12.1 0.0 0.0 55.8 32.1 9.000e-01 142 2.51e-02 10.5 0.0 0.0 57.4 32.2 1.000e+00 176 2.58e-02 12.5 0.0 0.0 55.3 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:39:15 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16054) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16052) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16064)] [New Thread 0xffffdffff180 (LWP 16065)] [Thread 0xffffdffff180 (LWP 16065) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16062 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: df1e4b62-d76b-42b7-862d-9f4dc7e4f997 Run started at : Mon Dec 9 15:39:29 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.4 149.6 -50.0 1.000e-01 253 3.21e-02 14.4 0.0 0.0 58.5 27.1 2.000e-01 152 2.43e-02 11.5 0.0 0.0 55.0 33.6 3.000e-01 150 2.41e-02 11.4 0.0 0.0 55.5 33.1 4.000e-01 155 2.46e-02 11.7 0.0 0.0 55.7 32.6 5.000e-01 139 2.44e-02 10.5 0.0 0.0 56.0 33.5 6.000e-01 124 2.45e-02 9.5 0.0 0.0 57.5 33.0 7.000e-01 130 2.40e-02 10.0 0.0 0.0 56.7 33.2 8.000e-01 163 2.47e-02 12.2 0.0 0.0 55.2 32.6 9.000e-01 142 2.43e-02 10.8 0.0 0.0 56.4 32.8 1.000e+00 176 2.54e-02 12.7 0.0 0.0 55.0 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:39:30 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16064) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16062) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16074)] [New Thread 0xffffdffff180 (LWP 16075)] [Thread 0xffffdffff180 (LWP 16075) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16072 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 1be74fc8-877c-483e-a7a6-2b57ca6d51c2 Run started at : Mon Dec 9 15:39:44 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.4 149.9 -50.3 1.000e-01 253 3.25e-02 14.2 0.0 0.0 58.8 27.0 2.000e-01 152 2.44e-02 11.6 0.0 0.0 55.0 33.5 3.000e-01 150 2.41e-02 11.4 0.0 0.0 55.1 33.5 4.000e-01 155 2.42e-02 11.9 0.0 0.0 54.8 33.3 5.000e-01 139 2.43e-02 10.5 0.0 0.0 56.2 33.2 6.000e-01 124 2.42e-02 9.4 0.0 0.0 57.1 33.5 7.000e-01 130 2.44e-02 9.8 0.0 0.0 56.8 33.3 8.000e-01 163 2.48e-02 12.1 0.0 0.0 55.2 32.7 9.000e-01 142 2.43e-02 10.8 0.0 0.0 56.3 32.9 1.000e+00 176 2.56e-02 12.6 0.0 0.0 55.8 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:39:44 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16074) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16072) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16084)] [New Thread 0xffffdffff180 (LWP 16085)] [Thread 0xffffdffff180 (LWP 16085) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16082 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 77a263ce-e82a-45b6-8a94-c132ab389de6 Run started at : Mon Dec 9 15:39:59 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.0 0.0 0.4 149.2 -49.6 1.000e-01 253 3.21e-02 14.4 0.0 0.0 58.0 27.6 2.000e-01 152 2.43e-02 11.5 0.0 0.0 54.6 33.9 3.000e-01 150 2.42e-02 11.4 0.0 0.0 55.8 32.8 4.000e-01 155 2.46e-02 11.5 0.0 0.0 55.6 32.9 5.000e-01 139 2.42e-02 10.6 0.0 0.0 56.7 32.6 6.000e-01 124 2.41e-02 9.6 0.0 0.0 57.4 33.0 7.000e-01 130 2.44e-02 9.9 0.0 0.0 57.3 32.7 8.000e-01 163 2.50e-02 11.9 0.0 0.0 55.8 32.3 9.000e-01 142 2.43e-02 10.8 0.0 0.0 56.2 33.1 1.000e+00 176 2.54e-02 12.8 0.0 0.0 54.8 32.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:39:59 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16084) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16082) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16094)] [New Thread 0xffffdffff180 (LWP 16095)] [Thread 0xffffdffff180 (LWP 16095) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16092 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 77ce9088-18bb-473e-9644-ee295113cfd5 Run started at : Mon Dec 9 15:40:14 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.12e-02 0.1 0.0 0.4 147.9 -48.3 1.000e-01 253 3.25e-02 14.4 0.0 0.0 58.6 27.1 2.000e-01 152 2.44e-02 11.5 0.0 0.0 54.8 33.7 3.000e-01 150 2.45e-02 11.3 0.0 0.0 55.2 33.5 4.000e-01 155 2.45e-02 11.6 0.0 0.0 55.4 33.0 5.000e-01 139 2.43e-02 10.6 0.0 0.0 56.5 32.9 6.000e-01 124 2.38e-02 9.6 0.0 0.0 57.4 33.0 7.000e-01 130 2.42e-02 10.0 0.0 0.0 56.5 33.5 8.000e-01 163 2.50e-02 12.1 0.0 0.0 55.4 32.5 9.000e-01 142 2.47e-02 10.6 0.0 0.0 56.5 32.9 1.000e+00 176 2.55e-02 12.7 0.0 0.0 55.4 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:40:14 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16094) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16092) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16104)] [New Thread 0xffffdffff180 (LWP 16105)] [Thread 0xffffdffff180 (LWP 16105) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16102 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21c890) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21dc80) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ac18, comm=0xaaaaab2151b0) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21dc80) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ac18, comm=0xaaaaab2151b0) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21dc80) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ac18, comm=0xaaaaab2151b0) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21dc80) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ac18, comm=0xaaaaab2151b0) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21dc80) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ac18, comm=0xaaaaab2151b0) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21dc80) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab237170) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 8f6e7947-85be-45e2-8eb4-b1a960d02f00 Run started at : Mon Dec 9 15:40:28 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.4 148.8 -49.2 1.000e-01 253 3.24e-02 14.6 0.0 0.0 58.5 26.9 2.000e-01 152 2.46e-02 11.4 0.0 0.0 55.4 33.2 3.000e-01 150 2.44e-02 11.3 0.0 0.0 55.9 32.9 4.000e-01 155 2.47e-02 11.6 0.0 0.0 55.6 32.7 5.000e-01 139 2.42e-02 10.6 0.0 0.0 56.1 33.3 6.000e-01 124 2.42e-02 9.5 0.0 0.0 57.2 33.3 7.000e-01 130 2.43e-02 9.9 0.0 0.0 57.6 32.5 8.000e-01 163 2.52e-02 11.9 0.0 0.0 56.3 31.8 9.000e-01 142 2.46e-02 10.7 0.0 0.0 57.0 32.3 1.000e+00 176 2.53e-02 12.9 0.0 0.0 55.5 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:40:28 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16104) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16102) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16114)] [New Thread 0xffffdffff180 (LWP 16115)] [Thread 0xffffdffff180 (LWP 16115) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16112 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 719b2909-cc54-4ef1-998e-34042e1a65ed Run started at : Mon Dec 9 15:40:43 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.0 0.0 0.4 147.9 -48.3 1.000e-01 253 3.18e-02 14.6 0.0 0.0 58.6 26.8 2.000e-01 152 2.41e-02 11.6 0.0 0.0 54.1 34.3 3.000e-01 150 2.38e-02 11.6 0.0 0.0 55.4 33.0 4.000e-01 155 2.38e-02 11.9 0.0 0.0 55.2 32.9 5.000e-01 139 2.36e-02 10.8 0.0 0.0 56.4 32.8 6.000e-01 124 2.36e-02 9.7 0.0 0.0 57.2 33.1 7.000e-01 130 2.34e-02 10.3 0.0 0.0 56.0 33.7 8.000e-01 163 2.46e-02 12.1 0.0 0.0 55.7 32.2 9.000e-01 142 2.42e-02 10.8 0.0 0.0 56.1 33.2 1.000e+00 176 2.47e-02 13.1 0.0 0.0 54.8 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.0 Run finished at : Mon Dec 9 15:40:43 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16114) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16112) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16124)] [New Thread 0xffffdffff180 (LWP 16125)] [Thread 0xffffdffff180 (LWP 16125) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16122 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 7ee62e3c-850f-4637-91ea-d2a19a4bd59a Run started at : Mon Dec 9 15:40:57 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.1 0.0 0.3 148.9 -49.3 1.000e-01 253 3.22e-02 14.4 0.0 0.0 58.4 27.1 2.000e-01 152 2.43e-02 11.5 0.0 0.0 54.6 33.8 3.000e-01 150 2.43e-02 11.4 0.0 0.0 55.6 33.0 4.000e-01 155 2.45e-02 11.7 0.0 0.0 55.2 33.1 5.000e-01 139 2.44e-02 10.5 0.0 0.0 56.5 33.0 6.000e-01 124 2.38e-02 9.7 0.0 0.0 57.1 33.2 7.000e-01 130 2.41e-02 10.0 0.0 0.0 57.0 33.0 8.000e-01 163 2.50e-02 12.0 0.0 0.0 55.8 32.2 9.000e-01 142 2.46e-02 10.7 0.0 0.0 56.5 32.8 1.000e+00 176 2.54e-02 12.8 0.0 0.0 55.5 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:40:58 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16124) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16122) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16134)] [New Thread 0xffffdffff180 (LWP 16135)] [Thread 0xffffdffff180 (LWP 16135) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16132 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: c84355c9-1ccb-48e6-9a47-2b4e870775e7 Run started at : Mon Dec 9 15:41:12 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.03e-02 0.0 0.0 0.4 148.4 -48.8 1.000e-01 253 3.18e-02 14.6 0.0 0.0 58.0 27.4 2.000e-01 152 2.39e-02 11.9 0.0 0.0 54.1 34.0 3.000e-01 150 2.37e-02 11.6 0.0 0.0 55.0 33.4 4.000e-01 155 2.40e-02 11.9 0.0 0.0 54.9 33.2 5.000e-01 139 2.39e-02 10.8 0.0 0.0 55.7 33.4 6.000e-01 124 2.38e-02 9.7 0.0 0.0 57.0 33.3 7.000e-01 130 2.38e-02 10.1 0.0 0.0 56.4 33.4 8.000e-01 163 2.43e-02 12.3 0.0 0.0 55.0 32.7 9.000e-01 142 2.44e-02 10.8 0.0 0.0 56.1 33.1 1.000e+00 176 2.52e-02 12.9 0.0 0.0 55.2 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:41:12 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16134) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16132) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16144)] [New Thread 0xffffdffff180 (LWP 16145)] [Thread 0xffffdffff180 (LWP 16145) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16142 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 12a19713-269c-439e-b548-6b312a76af1b Run started at : Mon Dec 9 15:41:27 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.3 149.1 -49.6 1.000e-01 253 3.23e-02 14.3 0.0 0.0 58.3 27.3 2.000e-01 152 2.43e-02 11.5 0.0 0.0 55.3 33.2 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.2 33.4 4.000e-01 155 2.45e-02 11.7 0.0 0.0 55.4 32.9 5.000e-01 139 2.40e-02 10.8 0.0 0.0 56.4 32.8 6.000e-01 124 2.41e-02 9.5 0.0 0.0 57.3 33.3 7.000e-01 130 2.42e-02 9.9 0.0 0.0 57.2 32.9 8.000e-01 163 2.48e-02 12.1 0.0 0.0 55.0 32.9 9.000e-01 142 2.45e-02 10.7 0.0 0.0 56.7 32.6 1.000e+00 176 2.55e-02 12.7 0.0 0.0 55.2 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:41:27 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16144) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16142) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16154)] [New Thread 0xffffdffff180 (LWP 16155)] [Thread 0xffffdffff180 (LWP 16155) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16152 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 89dc31d8-c22d-466a-a8dc-e4c1ed01e7c5 Run started at : Mon Dec 9 15:41:41 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.02e-02 0.1 0.0 0.4 149.3 -49.7 1.000e-01 253 3.20e-02 14.6 0.0 0.0 57.9 27.5 2.000e-01 152 2.42e-02 11.5 0.0 0.0 54.2 34.3 3.000e-01 150 2.38e-02 11.7 0.0 0.0 54.6 33.7 4.000e-01 155 2.41e-02 11.8 0.0 0.0 55.1 33.1 5.000e-01 139 2.38e-02 10.7 0.0 0.0 55.9 33.4 6.000e-01 124 2.42e-02 9.5 0.0 0.0 58.0 32.5 7.000e-01 130 2.40e-02 10.0 0.0 0.0 56.7 33.3 8.000e-01 163 2.45e-02 12.2 0.0 0.0 55.3 32.5 9.000e-01 142 2.42e-02 10.9 0.0 0.0 56.3 32.8 1.000e+00 176 2.46e-02 13.1 0.0 0.0 54.5 32.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.0 Run finished at : Mon Dec 9 15:41:42 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16154) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16152) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16164)] [New Thread 0xffffdffff180 (LWP 16165)] [Thread 0xffffdffff180 (LWP 16165) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16162 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: dc83a2a3-a6d1-4dc0-b29e-b3839ffd5217 Run started at : Mon Dec 9 15:41:56 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.4 148.6 -49.1 1.000e-01 253 3.18e-02 14.6 0.0 0.0 58.2 27.3 2.000e-01 152 2.45e-02 11.4 0.0 0.0 55.1 33.5 3.000e-01 150 2.44e-02 11.3 0.0 0.0 55.7 33.0 4.000e-01 155 2.45e-02 11.8 0.0 0.0 55.7 32.6 5.000e-01 139 2.48e-02 10.4 0.0 0.0 56.6 33.0 6.000e-01 124 2.40e-02 9.7 0.0 0.0 57.0 33.4 7.000e-01 130 2.42e-02 9.9 0.0 0.0 57.0 33.1 8.000e-01 163 2.49e-02 12.1 0.0 0.0 55.6 32.3 9.000e-01 142 2.47e-02 10.6 0.0 0.0 56.6 32.8 1.000e+00 176 2.54e-02 12.7 0.0 0.0 55.7 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:41:56 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16164) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16162) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16174)] [New Thread 0xffffdffff180 (LWP 16175)] [Thread 0xffffdffff180 (LWP 16175) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16172 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 4286af41-27a8-48e0-902f-6ad07e3b744e Run started at : Mon Dec 9 15:42:10 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.3 148.9 -49.3 1.000e-01 253 3.22e-02 14.4 0.0 0.0 58.2 27.4 2.000e-01 152 2.43e-02 11.5 0.0 0.0 54.8 33.7 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.3 33.3 4.000e-01 155 2.43e-02 11.6 0.0 0.0 55.8 32.6 5.000e-01 139 2.42e-02 10.7 0.0 0.0 56.2 33.1 6.000e-01 124 2.38e-02 9.6 0.0 0.0 56.9 33.5 7.000e-01 130 2.45e-02 9.9 0.0 0.0 57.3 32.9 8.000e-01 163 2.49e-02 12.0 0.0 0.0 55.6 32.5 9.000e-01 142 2.51e-02 10.5 0.0 0.0 56.9 32.7 1.000e+00 176 2.56e-02 12.6 0.0 0.0 55.2 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:42:11 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16174) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16172) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16184)] [New Thread 0xffffdffff180 (LWP 16185)] [Thread 0xffffdffff180 (LWP 16185) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16182 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3b50, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3b50) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3b50, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 1eeeb890-7a8d-481c-8e3f-5f89f49ffd1a Run started at : Mon Dec 9 15:42:25 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 -0.0 0.0 0.4 150.2 -50.7 1.000e-01 253 3.21e-02 14.4 0.0 0.0 58.1 27.5 2.000e-01 152 2.39e-02 11.7 0.0 0.0 54.5 33.8 3.000e-01 150 2.37e-02 11.7 0.0 0.0 54.7 33.6 4.000e-01 155 2.40e-02 11.9 0.0 0.0 54.7 33.5 5.000e-01 139 2.37e-02 10.8 0.0 0.0 55.7 33.5 6.000e-01 124 2.37e-02 9.8 0.0 0.0 56.9 33.4 7.000e-01 130 2.38e-02 10.1 0.0 0.0 56.1 33.8 8.000e-01 163 2.43e-02 12.3 0.0 0.0 54.7 33.0 9.000e-01 142 2.40e-02 11.0 0.0 0.0 55.9 33.1 1.000e+00 176 2.47e-02 12.9 0.0 0.0 54.4 32.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.0 Run finished at : Mon Dec 9 15:42:25 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16184) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16182) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Argument list to give program being debugged when it is started is "". Function "MPI_Comm_rank" not defined. Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16194)] [New Thread 0xffffdffff180 (LWP 16195)] [Thread 0xffffdffff180 (LWP 16195) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16192 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 9d6adf0c-5ce9-4dbf-bfe1-a3a1857e4b56 Run started at : Mon Dec 9 15:42:40 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.0 0.0 0.4 149.5 -49.9 1.000e-01 253 3.22e-02 14.4 0.0 0.0 58.2 27.4 2.000e-01 152 2.46e-02 11.4 0.0 0.0 54.7 33.9 3.000e-01 150 2.44e-02 11.3 0.0 0.0 55.0 33.6 4.000e-01 155 2.46e-02 11.6 0.0 0.0 55.7 32.7 5.000e-01 139 2.41e-02 10.7 0.0 0.0 56.3 33.1 6.000e-01 124 2.41e-02 9.6 0.0 0.0 57.0 33.3 7.000e-01 130 2.45e-02 10.4 0.0 0.0 56.8 32.8 8.000e-01 163 2.54e-02 11.7 0.0 0.0 55.7 32.6 9.000e-01 142 2.46e-02 10.7 0.0 0.0 56.7 32.7 1.000e+00 176 2.56e-02 12.6 0.0 0.0 55.2 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:42:40 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16194) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16192) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16204)] [New Thread 0xffffdffff180 (LWP 16205)] [Thread 0xffffdffff180 (LWP 16205) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16202 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: dd210ba9-b045-4029-8066-396219347789 Run started at : Mon Dec 9 15:42:54 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.3 149.6 -50.0 1.000e-01 253 3.24e-02 14.4 0.0 0.0 58.3 27.3 2.000e-01 152 2.41e-02 11.6 0.0 0.0 54.7 33.7 3.000e-01 150 2.41e-02 11.5 0.0 0.0 55.5 33.0 4.000e-01 155 2.44e-02 11.8 0.0 0.0 55.6 32.6 5.000e-01 139 2.38e-02 10.8 0.0 0.0 56.3 32.8 6.000e-01 124 2.37e-02 9.6 0.0 0.0 57.0 33.4 7.000e-01 130 2.39e-02 10.1 0.0 0.0 56.3 33.6 8.000e-01 163 2.50e-02 12.0 0.0 0.0 55.1 32.8 9.000e-01 142 2.43e-02 10.7 0.0 0.0 56.4 32.8 1.000e+00 176 2.52e-02 12.8 0.0 0.0 54.8 32.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:42:55 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16204) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16202) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16214)] [New Thread 0xffffdffff180 (LWP 16215)] [Thread 0xffffdffff180 (LWP 16215) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16212 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: a81baea5-87f9-41e5-9d52-08a43395e88d Run started at : Mon Dec 9 15:43:09 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.0 0.0 0.4 148.8 -49.2 1.000e-01 253 3.20e-02 14.5 0.0 0.0 58.2 27.4 2.000e-01 152 2.40e-02 11.7 0.0 0.0 54.5 33.8 3.000e-01 150 2.38e-02 11.7 0.0 0.0 55.0 33.3 4.000e-01 155 2.40e-02 11.8 0.0 0.0 55.1 33.0 5.000e-01 139 2.40e-02 10.7 0.0 0.0 55.9 33.4 6.000e-01 124 2.36e-02 9.7 0.0 0.0 56.4 33.9 7.000e-01 130 2.40e-02 10.0 0.0 0.0 56.9 33.1 8.000e-01 163 2.46e-02 12.3 0.0 0.0 55.1 32.7 9.000e-01 142 2.43e-02 10.8 0.0 0.0 56.1 33.1 1.000e+00 176 2.53e-02 12.8 0.0 0.0 55.2 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:43:09 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16214) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16212) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16224)] [New Thread 0xffffdffff180 (LWP 16225)] [Thread 0xffffdffff180 (LWP 16225) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16222 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 6e73b2a9-59bb-479e-b432-d265804ae061 Run started at : Mon Dec 9 15:43:24 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.1 0.0 0.3 149.2 -49.7 1.000e-01 253 3.20e-02 14.5 0.0 0.0 58.2 27.4 2.000e-01 152 2.40e-02 11.6 0.0 0.0 54.4 34.0 3.000e-01 150 2.48e-02 11.2 0.0 0.0 55.9 32.9 4.000e-01 155 2.44e-02 11.7 0.0 0.0 55.0 33.2 5.000e-01 139 2.40e-02 10.8 0.0 0.0 56.0 33.3 6.000e-01 124 2.37e-02 9.8 0.0 0.0 57.2 33.0 7.000e-01 130 2.40e-02 10.0 0.0 0.0 56.8 33.1 8.000e-01 163 2.47e-02 12.2 0.0 0.0 55.5 32.3 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.5 33.0 1.000e+00 176 2.52e-02 12.8 0.0 0.0 55.0 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:43:24 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16224) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16222) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16234)] [New Thread 0xffffdffff180 (LWP 16235)] [Thread 0xffffdffff180 (LWP 16235) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16232 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: c43b136a-7312-466e-b3bb-f80a6ceb6395 Run started at : Mon Dec 9 15:43:38 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.0 0.0 0.4 148.8 -49.2 1.000e-01 253 3.25e-02 14.3 0.0 0.0 58.3 27.4 2.000e-01 152 2.45e-02 11.5 0.0 0.0 55.2 33.3 3.000e-01 150 2.47e-02 11.3 0.0 0.0 55.5 33.2 4.000e-01 155 2.47e-02 11.5 0.0 0.0 55.5 33.0 5.000e-01 139 2.43e-02 10.6 0.0 0.0 56.6 32.9 6.000e-01 124 2.42e-02 9.6 0.0 0.0 57.2 33.2 7.000e-01 130 2.44e-02 10.0 0.0 0.0 57.5 32.5 8.000e-01 163 2.55e-02 11.7 0.0 0.0 56.0 32.3 9.000e-01 142 2.46e-02 10.7 0.0 0.0 56.3 33.0 1.000e+00 176 2.54e-02 12.6 0.0 0.0 55.1 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:43:39 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16234) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16232) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16244)] [New Thread 0xffffdffff180 (LWP 16245)] [Thread 0xffffdffff180 (LWP 16245) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16242 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3d30, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3d30) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3d30, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe59c3d30, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe59c3d30) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe59c3d30, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: f0129ce7-ecd7-4a51-8cce-8df24e707792 Run started at : Mon Dec 9 15:43:53 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.03e-02 0.1 0.0 0.3 149.2 -49.6 1.000e-01 253 3.14e-02 14.7 0.0 0.0 57.9 27.4 2.000e-01 152 2.39e-02 11.6 0.0 0.0 54.9 33.5 3.000e-01 150 2.43e-02 11.3 0.0 0.0 55.5 33.2 4.000e-01 155 2.46e-02 11.7 0.0 0.0 56.0 32.3 5.000e-01 139 2.41e-02 10.6 0.0 0.0 56.5 32.8 6.000e-01 124 2.39e-02 9.6 0.0 0.0 57.3 33.2 7.000e-01 130 2.40e-02 10.0 0.0 0.0 57.0 33.0 8.000e-01 163 2.50e-02 12.0 0.0 0.0 55.7 32.3 9.000e-01 142 2.43e-02 10.8 0.0 0.0 56.4 32.8 1.000e+00 176 2.54e-02 12.7 0.0 0.0 55.5 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:43:53 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16244) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16242) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16254)] [New Thread 0xffffdffff180 (LWP 16255)] [Thread 0xffffdffff180 (LWP 16255) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16252 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5943bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5943bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5943bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 19c02395-17fc-416b-8c76-3119744a59c2 Run started at : Mon Dec 9 15:44:07 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 -0.0 0.0 0.4 149.3 -49.7 1.000e-01 253 3.24e-02 14.4 0.0 0.0 58.1 27.5 2.000e-01 152 2.43e-02 11.6 0.0 0.0 54.9 33.5 3.000e-01 150 2.42e-02 11.5 0.0 0.0 55.1 33.4 4.000e-01 155 2.43e-02 11.7 0.0 0.0 55.4 32.9 5.000e-01 139 2.41e-02 10.7 0.0 0.0 56.5 32.8 6.000e-01 124 2.39e-02 9.6 0.0 0.0 57.2 33.2 7.000e-01 130 2.40e-02 10.1 0.0 0.0 56.9 33.0 8.000e-01 163 2.47e-02 12.1 0.0 0.0 55.6 32.3 9.000e-01 142 2.42e-02 10.9 0.0 0.0 56.4 32.8 1.000e+00 176 2.52e-02 12.8 0.0 0.0 55.3 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:44:08 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16254) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16252) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16264)] [New Thread 0xffffdffff180 (LWP 16265)] [Thread 0xffffdffff180 (LWP 16265) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16262 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 72fa14a6-b7fe-4b97-822c-246b1d7d53af Run started at : Mon Dec 9 15:44:22 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 -0.0 0.0 0.4 149.1 -49.5 1.000e-01 253 3.17e-02 14.6 0.0 0.0 58.0 27.3 2.000e-01 152 2.42e-02 11.6 0.0 0.0 55.6 32.8 3.000e-01 150 2.40e-02 11.6 0.0 0.0 55.5 32.9 4.000e-01 155 2.43e-02 11.7 0.0 0.0 55.9 32.3 5.000e-01 139 2.41e-02 10.6 0.0 0.0 56.5 32.9 6.000e-01 124 2.42e-02 9.5 0.0 0.0 57.5 33.0 7.000e-01 130 2.41e-02 10.0 0.0 0.0 57.1 32.9 8.000e-01 163 2.50e-02 12.0 0.0 0.0 56.2 31.8 9.000e-01 142 2.44e-02 10.7 0.0 0.0 56.6 32.7 1.000e+00 176 2.50e-02 12.8 0.0 0.0 55.1 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:44:22 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16264) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16262) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16274)] [New Thread 0xffffdffff180 (LWP 16275)] [Thread 0xffffdffff180 (LWP 16275) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16272 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 28714821-91eb-4e7d-920c-423bf3773fd8 Run started at : Mon Dec 9 15:44:37 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.11e-02 0.1 0.0 0.4 148.8 -49.3 1.000e-01 253 3.28e-02 14.0 0.0 0.0 59.0 27.0 2.000e-01 152 2.49e-02 11.3 0.0 0.0 55.7 33.0 3.000e-01 150 2.54e-02 10.9 0.0 0.0 56.3 32.8 4.000e-01 155 2.55e-02 11.2 0.0 0.0 56.1 32.7 5.000e-01 139 2.51e-02 10.2 0.0 0.0 57.6 32.2 6.000e-01 124 2.46e-02 9.4 0.0 0.0 58.0 32.6 7.000e-01 130 2.52e-02 9.6 0.0 0.0 57.9 32.5 8.000e-01 163 2.57e-02 11.6 0.0 0.0 56.5 31.9 9.000e-01 142 2.52e-02 10.4 0.0 0.0 57.3 32.3 1.000e+00 176 2.63e-02 12.2 0.0 0.0 56.2 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:44:37 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16274) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16272) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16284)] [New Thread 0xffffdffff180 (LWP 16285)] [Thread 0xffffdffff180 (LWP 16285) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16282 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 54dab597-d297-47e8-9689-439950689cfe Run started at : Mon Dec 9 15:44:51 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.4 148.5 -49.0 1.000e-01 253 3.27e-02 14.3 0.0 0.0 58.5 27.3 2.000e-01 152 2.42e-02 11.6 0.0 0.0 54.9 33.5 3.000e-01 150 2.43e-02 11.5 0.0 0.0 55.1 33.4 4.000e-01 155 2.43e-02 11.7 0.0 0.0 55.2 33.0 5.000e-01 139 2.40e-02 10.7 0.0 0.0 56.1 33.2 6.000e-01 124 2.40e-02 9.5 0.0 0.0 57.2 33.3 7.000e-01 130 2.39e-02 10.1 0.0 0.0 56.8 33.1 8.000e-01 163 2.47e-02 12.2 0.0 0.0 55.5 32.3 9.000e-01 142 2.41e-02 10.9 0.0 0.0 56.3 32.8 1.000e+00 176 2.51e-02 12.8 0.0 0.0 55.0 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:44:52 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16284) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16282) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16294)] [New Thread 0xffffdffff180 (LWP 16295)] [Thread 0xffffdffff180 (LWP 16295) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16292 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: b9438a92-98ab-48de-922e-d665192781d5 Run started at : Mon Dec 9 15:45:06 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 -0.0 0.0 0.4 148.2 -48.6 1.000e-01 253 3.21e-02 14.4 0.0 0.0 58.7 26.9 2.000e-01 152 2.43e-02 11.4 0.0 0.0 55.1 33.5 3.000e-01 150 2.45e-02 11.2 0.0 0.0 55.8 32.9 4.000e-01 155 2.43e-02 11.8 0.0 0.0 55.3 32.9 5.000e-01 139 2.43e-02 10.6 0.0 0.0 56.1 33.3 6.000e-01 124 2.43e-02 9.4 0.0 0.0 57.5 33.1 7.000e-01 130 2.41e-02 10.0 0.0 0.0 57.2 32.8 8.000e-01 163 2.49e-02 11.9 0.0 0.0 55.7 32.4 9.000e-01 142 2.46e-02 10.6 0.0 0.0 57.1 32.3 1.000e+00 176 2.51e-02 12.9 0.0 0.0 54.8 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:45:06 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16294) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16292) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16304)] [New Thread 0xffffdffff180 (LWP 16305)] [Thread 0xffffdffff180 (LWP 16305) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16302 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 0a0eebe8-0b20-4053-9609-f40e4701530e Run started at : Mon Dec 9 15:45:21 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.3 148.5 -49.0 1.000e-01 253 3.26e-02 14.2 0.0 0.0 58.8 27.0 2.000e-01 152 2.46e-02 11.4 0.0 0.0 55.2 33.5 3.000e-01 150 2.42e-02 11.4 0.0 0.0 55.7 32.9 4.000e-01 155 2.43e-02 11.7 0.0 0.0 56.0 32.3 5.000e-01 139 2.45e-02 10.5 0.0 0.0 56.8 32.6 6.000e-01 124 2.42e-02 9.5 0.0 0.0 57.6 32.9 7.000e-01 130 2.42e-02 10.0 0.0 0.0 57.8 32.2 8.000e-01 163 2.52e-02 11.9 0.0 0.0 56.3 31.8 9.000e-01 142 2.51e-02 10.5 0.0 0.0 57.3 32.1 1.000e+00 176 2.57e-02 12.6 0.0 0.0 56.1 31.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:45:21 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16304) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16302) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16314)] [New Thread 0xffffdffff180 (LWP 16315)] [Thread 0xffffdffff180 (LWP 16315) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16312 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 37e59bf1-5f73-4318-9397-b5b33e98fa8d Run started at : Mon Dec 9 15:45:35 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.3 148.6 -49.0 1.000e-01 253 3.19e-02 14.4 0.0 0.0 58.7 26.8 2.000e-01 152 2.45e-02 11.4 0.0 0.0 55.3 33.3 3.000e-01 150 2.45e-02 11.3 0.0 0.0 55.9 32.8 4.000e-01 155 2.48e-02 11.4 0.0 0.0 56.3 32.2 5.000e-01 139 2.42e-02 10.7 0.0 0.0 56.8 32.6 6.000e-01 124 2.41e-02 9.6 0.0 0.0 58.0 32.4 7.000e-01 130 2.45e-02 9.8 0.0 0.0 57.0 33.2 8.000e-01 163 2.51e-02 12.0 0.0 0.0 55.6 32.4 9.000e-01 142 2.48e-02 10.6 0.0 0.0 56.8 32.6 1.000e+00 176 2.54e-02 12.7 0.0 0.0 55.4 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:45:35 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16314) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16312) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16324)] [New Thread 0xffffdffff180 (LWP 16325)] [Thread 0xffffdffff180 (LWP 16325) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16322 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 7be30530-4f07-435c-9349-f4a81c0395a0 Run started at : Mon Dec 9 15:45:50 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.4 148.7 -49.1 1.000e-01 253 3.22e-02 14.4 0.0 0.0 58.2 27.4 2.000e-01 152 2.45e-02 11.4 0.0 0.0 55.2 33.4 3.000e-01 150 2.43e-02 11.4 0.0 0.0 55.9 32.7 4.000e-01 155 2.43e-02 11.9 0.0 0.0 55.2 32.9 5.000e-01 139 2.43e-02 10.6 0.0 0.0 55.9 33.5 6.000e-01 124 2.36e-02 9.8 0.0 0.0 57.1 33.1 7.000e-01 130 2.39e-02 10.0 0.0 0.0 57.3 32.7 8.000e-01 163 2.50e-02 12.0 0.0 0.0 56.0 32.0 9.000e-01 142 2.44e-02 10.7 0.0 0.0 57.1 32.2 1.000e+00 176 2.54e-02 12.7 0.0 0.0 55.4 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:45:50 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16324) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16322) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16334)] [New Thread 0xffffdffff180 (LWP 16335)] [Thread 0xffffdffff180 (LWP 16335) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16332 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: bac9bb96-8aec-4f78-aad9-0f4b24545535 Run started at : Mon Dec 9 15:46:04 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.0 0.0 0.4 148.2 -48.6 1.000e-01 253 3.21e-02 14.5 0.0 0.0 58.2 27.3 2.000e-01 152 2.42e-02 11.6 0.0 0.0 55.2 33.3 3.000e-01 150 2.42e-02 11.4 0.0 0.0 55.8 32.8 4.000e-01 155 2.43e-02 11.9 0.0 0.0 55.1 33.0 5.000e-01 139 2.38e-02 10.8 0.0 0.0 56.0 33.2 6.000e-01 124 2.40e-02 9.5 0.0 0.0 57.2 33.3 7.000e-01 130 2.39e-02 10.1 0.0 0.0 56.7 33.2 8.000e-01 163 2.43e-02 12.3 0.0 0.0 55.0 32.7 9.000e-01 142 2.40e-02 10.8 0.0 0.0 56.6 32.6 1.000e+00 176 2.52e-02 12.9 0.0 0.0 55.0 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:46:05 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16334) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16332) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16344)] [New Thread 0xffffdffff180 (LWP 16345)] [Thread 0xffffdffff180 (LWP 16345) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16342 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: ffb6a846-3aeb-4877-9d39-f4bfa7eb1184 Run started at : Mon Dec 9 15:46:19 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.4 148.0 -48.5 1.000e-01 253 3.21e-02 14.5 0.0 0.0 58.2 27.3 2.000e-01 152 2.43e-02 11.5 0.0 0.0 55.2 33.3 3.000e-01 150 2.45e-02 11.3 0.0 0.0 55.6 33.1 4.000e-01 155 2.42e-02 11.7 0.0 0.0 55.3 33.0 5.000e-01 139 2.40e-02 10.7 0.0 0.0 56.5 32.8 6.000e-01 124 2.37e-02 9.7 0.0 0.0 57.2 33.1 7.000e-01 130 2.39e-02 10.0 0.0 0.0 57.3 32.8 8.000e-01 163 2.47e-02 12.1 0.0 0.0 55.5 32.4 9.000e-01 142 2.43e-02 10.8 0.0 0.0 56.6 32.5 1.000e+00 176 2.52e-02 12.8 0.0 0.0 55.7 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:46:19 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16344) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16342) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16354)] [New Thread 0xffffdffff180 (LWP 16355)] [Thread 0xffffdffff180 (LWP 16355) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16352 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xfffff751b3a0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xfffff751b3a0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xfffff751b3a0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xfffff751b3a0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xfffff751b3a0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xfffff751b3a0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: c032d271-72f9-4682-9e03-14eb1b0dbdab Run started at : Mon Dec 9 15:46:34 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.0 0.0 0.4 148.8 -49.2 1.000e-01 253 3.20e-02 14.5 0.0 0.0 58.2 27.3 2.000e-01 152 2.44e-02 11.5 0.0 0.0 55.5 33.0 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.1 33.5 4.000e-01 155 2.45e-02 11.6 0.0 0.0 55.8 32.6 5.000e-01 139 2.39e-02 10.6 0.0 0.0 56.1 33.2 6.000e-01 124 2.43e-02 9.4 0.0 0.0 58.1 32.6 7.000e-01 130 2.41e-02 9.9 0.0 0.0 57.4 32.7 8.000e-01 163 2.50e-02 11.9 0.0 0.0 55.9 32.2 9.000e-01 142 2.52e-02 10.4 0.0 0.0 56.8 32.9 1.000e+00 176 2.59e-02 12.5 0.0 0.0 55.8 31.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:46:34 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16354) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16352) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16364)] [New Thread 0xffffdffff180 (LWP 16365)] [Thread 0xffffdffff180 (LWP 16365) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16362 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 6f5c1b9d-5e88-493e-80ea-861ad1c6aef1 Run started at : Mon Dec 9 15:46:48 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.0 0.0 0.4 148.8 -49.2 1.000e-01 253 3.24e-02 14.3 0.0 0.0 58.1 27.7 2.000e-01 152 2.44e-02 11.6 0.0 0.0 54.5 33.9 3.000e-01 150 2.42e-02 11.5 0.0 0.0 55.2 33.3 4.000e-01 155 2.42e-02 11.9 0.0 0.0 54.9 33.2 5.000e-01 139 2.40e-02 10.8 0.0 0.0 55.7 33.5 6.000e-01 124 2.39e-02 9.7 0.0 0.0 56.8 33.4 7.000e-01 130 2.43e-02 10.0 0.0 0.0 57.0 33.0 8.000e-01 163 2.49e-02 12.0 0.0 0.0 54.9 33.1 9.000e-01 142 2.46e-02 10.7 0.0 0.0 56.4 32.9 1.000e+00 176 2.55e-02 12.8 0.0 0.0 55.3 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:46:49 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16364) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16362) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe4fff180 (LWP 16374)] [New Thread 0xffffdffff180 (LWP 16375)] [Thread 0xffffdffff180 (LWP 16375) exited] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdb8c4 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16372 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff71331fc [PAC] in BoutMesh::load (this=0xaaaaab21cb00) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbae8 [PAC] in BoutInitialise (argc=@0xffffffffdad0: 3, argv=@0xffffffffdaa8: 0xaaaaaabf6ef0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8d0 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236918 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71be580 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723dee8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723e0ac [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723b7f4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabcd690, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff7382400 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff7236600 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff7382400 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71be664 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438084 [PAC] in __Pyx_PyObject_Call (func=0xffffe5e3aec0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe5e3aec0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe5e3aec0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f6444 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71cf590 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a798 [PAC] in SUNLogger_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b0fc [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a894 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b10c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495a998 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b168 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495ab14 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b17c [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495aa90 [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff495b190 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff4956620 [PAC] in SUNContext_Create () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #4 0x0000fffff71cfbcc [PAC] in sundials::Context::Context (this=0xaaaaab23ae88, comm=0xaaaaab215190) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71e00cc [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff727784c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabcde30, __args#0=0xaaaaab21def0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c20 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72023ac [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab2373e0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 58f8a6b9-dc44-4677-a766-252ed260171b Run started at : Mon Dec 9 15:47:03 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.3 148.5 -48.9 1.000e-01 253 3.24e-02 14.2 0.0 0.0 58.3 27.5 2.000e-01 152 2.42e-02 11.6 0.0 0.0 55.1 33.3 3.000e-01 150 2.41e-02 11.4 0.0 0.0 55.0 33.6 4.000e-01 155 2.44e-02 11.7 0.0 0.0 55.4 32.9 5.000e-01 139 2.43e-02 10.6 0.0 0.0 56.7 32.6 6.000e-01 124 2.41e-02 9.6 0.0 0.0 57.5 32.9 7.000e-01 130 2.40e-02 10.0 0.0 0.0 57.3 32.7 8.000e-01 163 2.51e-02 12.0 0.0 0.0 55.8 32.2 9.000e-01 142 2.48e-02 10.6 0.0 0.0 57.1 32.3 1.000e+00 176 2.55e-02 12.6 0.0 0.0 55.6 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:47:03 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff495afe4 [PAC] in SUNLogger_Destroy () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #2 0x0000fffff4956a00 [PAC] in SUNContext_Free () from /usr/lib64/openmpi/lib/libsundials_core.so.7 #3 0x0000fffff71cf4d4 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71cf538 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #0 0x0000fffff469d058 in PMPI_Comm_rank () from /usr/lib64/openmpi/lib/libmpi.so.40 #1 0x0000fffff72093d4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fd666c [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff46b0168 in PMPI_Finalize () from /usr/lib64/openmpi/lib/libmpi.so.40 FINALIZING!!!![Thread 0xffffe4fff180 (LWP 16374) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16372) exited normally] + popd ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_openmpi ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f + popd + '[' openmpi = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ '[' sh = sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo x +++ '[' -n x ']' ++++ eval 'echo ${LD_LIBRARY_PATH}' +++++ echo /usr/lib64/openmpi/lib +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' ' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD ']' +++ '[' LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n '__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval __MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' __MODULES_QUARANTINE_SET=1 ' ++++ eval '__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/openmpi/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' __MODULES_QUARANTINE_SET=1 /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ __MODULES_QUAR_LD_LIBRARY_PATH=/usr/lib64/openmpi/lib +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ __MODULES_QUARANTINE_SET=1 +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval '_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ unset __MODULES_AUTOINIT_INPROGRESS ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' /bin/sh '!=' '' ']' +++ export -f _module_raw +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ unset _mlcode _mlret +++ '[' -n '' ']' + module unload mpi/openmpi-aarch64 + local _mlredir=0 + '[' -n '' ']' + case " $@ " in + '[' 0 -eq 0 ']' + _module_raw unload mpi/openmpi-aarch64 ++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh unload mpi/openmpi-aarch64 + eval 'unset MPI_COMPILER; unset LD_LIBRARY_PATH; unset MPI_MAN; MANPATH=/usr/share/man:; export MANPATH; unset MPI_INCLUDE; unset _LMFILES_; unset LOADEDMODULES; unset CMAKE_PREFIX_PATH; PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig; export PKG_CONFIG_PATH; unset MPI_PYTHON3_SITEARCH; unset MPI_HOME; unset MPI_FORTRAN_MOD_DIR; unset __MODULES_LMALTNAME; unset __MODULES_LMCONFLICT; __MODULES_SHARE_MANPATH=:1; export __MODULES_SHARE_MANPATH; unset MPI_SUFFIX; unset MPI_SYSCONFIG; __MODULES_SHARE_PKG_CONFIG_PATH=:1; export __MODULES_SHARE_PKG_CONFIG_PATH; unset MPI_LIB; PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin; export PATH; unset MPI_BIN; test 0;' ++ unset MPI_COMPILER ++ unset LD_LIBRARY_PATH ++ unset MPI_MAN ++ MANPATH=/usr/share/man: ++ export MANPATH ++ unset MPI_INCLUDE ++ unset _LMFILES_ ++ unset LOADEDMODULES ++ unset CMAKE_PREFIX_PATH ++ PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ unset MPI_PYTHON3_SITEARCH ++ unset MPI_HOME ++ unset MPI_FORTRAN_MOD_DIR ++ unset __MODULES_LMALTNAME ++ unset __MODULES_LMCONFLICT ++ __MODULES_SHARE_MANPATH=:1 ++ export __MODULES_SHARE_MANPATH ++ unset MPI_SUFFIX ++ unset MPI_SYSCONFIG ++ __MODULES_SHARE_PKG_CONFIG_PATH=:1 ++ export __MODULES_SHARE_PKG_CONFIG_PATH ++ unset MPI_LIB ++ PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ unset MPI_BIN ++ test 0 + _mlstatus=0 + return 0 + for mpi in openmpi mpich + fail=1 + '[' mpich = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ '[' sh = sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD ']' +++ '[' LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n 'LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' __MODULES_QUARANTINE_SET=1 ' ++++ eval 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' __MODULES_QUARANTINE_SET=1 /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ __MODULES_QUARANTINE_SET=1 +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; LOADEDMODULES=; export LOADEDMODULES; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval '_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; LOADEDMODULES=; export LOADEDMODULES; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ unset __MODULES_AUTOINIT_INPROGRESS ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ LOADEDMODULES= ++++ export LOADEDMODULES ++++ test 0 +++ '[' /bin/sh '!=' '' ']' +++ export -f _module_raw +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ unset _mlcode _mlret +++ '[' -n '' ']' + module load mpi/mpich-aarch64 + local _mlredir=0 + '[' -n '' ']' + case " $@ " in + '[' 0 -eq 0 ']' + _module_raw load mpi/mpich-aarch64 ++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh load mpi/mpich-aarch64 + eval 'LD_LIBRARY_PATH=/usr/lib64/mpich/lib; export LD_LIBRARY_PATH; MPI_COMPILER=mpich-aarch64; export MPI_COMPILER; MANPATH=/usr/share/man/mpich-aarch64:/usr/share/man:; export MANPATH; MPI_INCLUDE=/usr/include/mpich-aarch64; export MPI_INCLUDE; MPI_MAN=/usr/share/man/mpich-aarch64; export MPI_MAN; MPI_PYTHON_SITEARCH=%\{python2_sitearch\}/mpich; export MPI_PYTHON_SITEARCH; _LMFILES_=/usr/share/modulefiles/mpi/mpich-aarch64; export _LMFILES_; LOADEDMODULES=mpi/mpich-aarch64; export LOADEDMODULES; PKG_CONFIG_PATH=/usr/lib64/mpich/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig; export PKG_CONFIG_PATH; MPI_PYTHON3_SITEARCH=/usr/lib64/python3.13/site-packages/mpich; export MPI_PYTHON3_SITEARCH; MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/mpich; export MPI_FORTRAN_MOD_DIR; MPI_HOME=/usr/lib64/mpich; export MPI_HOME; __MODULES_LMCONFLICT=mpi/mpich-aarch64\&mpi; export __MODULES_LMCONFLICT; __MODULES_SHARE_MANPATH=:2; export __MODULES_SHARE_MANPATH; MPI_SYSCONFIG=/etc/mpich-aarch64; export MPI_SYSCONFIG; MPI_SUFFIX=_mpich; export MPI_SUFFIX; __MODULES_SHARE_PKG_CONFIG_PATH=:1; export __MODULES_SHARE_PKG_CONFIG_PATH; MPI_PYTHON2_SITEARCH=%\{python2_sitearch\}/mpich; export MPI_PYTHON2_SITEARCH; MPI_LIB=/usr/lib64/mpich/lib; export MPI_LIB; PATH=/usr/lib64/mpich/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin; export PATH; MPI_BIN=/usr/lib64/mpich/bin; export MPI_BIN; test 0;' ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f ++ LD_LIBRARY_PATH=/usr/lib64/mpich/lib ++ export LD_LIBRARY_PATH ++ MPI_COMPILER=mpich-aarch64 ++ export MPI_COMPILER ++ MANPATH=/usr/share/man/mpich-aarch64:/usr/share/man: ++ export MANPATH ++ MPI_INCLUDE=/usr/include/mpich-aarch64 ++ export MPI_INCLUDE ++ MPI_MAN=/usr/share/man/mpich-aarch64 ++ export MPI_MAN ++ MPI_PYTHON_SITEARCH='%{python2_sitearch}/mpich' ++ export MPI_PYTHON_SITEARCH ++ _LMFILES_=/usr/share/modulefiles/mpi/mpich-aarch64 ++ export _LMFILES_ ++ LOADEDMODULES=mpi/mpich-aarch64 ++ export LOADEDMODULES ++ PKG_CONFIG_PATH=/usr/lib64/mpich/lib/pkgconfig::/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ MPI_PYTHON3_SITEARCH=/usr/lib64/python3.13/site-packages/mpich ++ export MPI_PYTHON3_SITEARCH ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/mpich ++ export MPI_FORTRAN_MOD_DIR ++ MPI_HOME=/usr/lib64/mpich ++ export MPI_HOME ++ __MODULES_LMCONFLICT='mpi/mpich-aarch64&mpi' ++ export __MODULES_LMCONFLICT ++ __MODULES_SHARE_MANPATH=:2 ++ export __MODULES_SHARE_MANPATH ++ MPI_SYSCONFIG=/etc/mpich-aarch64 ++ export MPI_SYSCONFIG ++ MPI_SUFFIX=_mpich ++ export MPI_SUFFIX ++ __MODULES_SHARE_PKG_CONFIG_PATH=:1 ++ export __MODULES_SHARE_PKG_CONFIG_PATH ++ MPI_PYTHON2_SITEARCH='%{python2_sitearch}/mpich' ++ export MPI_PYTHON2_SITEARCH ++ MPI_LIB=/usr/lib64/mpich/lib ++ export MPI_LIB ++ PATH=/usr/lib64/mpich/bin:/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ MPI_BIN=/usr/lib64/mpich/bin ++ export MPI_BIN ++ test 0 + _mlstatus=0 + return 0 + export 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer' + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer' + pushd build_mpich + export OMPI_MCA_rmaps_base_oversubscribe=yes + OMPI_MCA_rmaps_base_oversubscribe=yes + export PRTE_MCA_rmaps_default_mapping_policy=:oversubscribe + PRTE_MCA_rmaps_default_mapping_policy=:oversubscribe + export HDF5_USE_FILE_LOCKING=FALSE + HDF5_USE_FILE_LOCKING=FALSE + sed 's/ 3s / 30s /' -i tests/integrated/test-coordinates-initialization/runtest + pushd tests/integrated/test-boutpp/simple-model ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tests/integrated/test-boutpp/simple-model ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f + cat + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16403)] [New Thread 0xffffe253f180 (LWP 16404)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16401 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: a569fca0-14e5-47fe-b288-ad7925d566e3 Run started at : Mon Dec 9 15:47:17 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.4 149.8 -50.2 1.000e-01 253 3.20e-02 14.5 0.0 0.0 58.1 27.3 2.000e-01 152 2.41e-02 11.5 0.0 0.0 55.1 33.4 3.000e-01 150 2.42e-02 11.6 0.0 0.0 55.6 32.8 4.000e-01 155 2.44e-02 11.7 0.0 0.0 55.6 32.8 5.000e-01 139 2.43e-02 10.7 0.0 0.0 56.4 32.9 6.000e-01 124 2.40e-02 9.6 0.0 0.0 57.0 33.4 7.000e-01 130 2.44e-02 10.0 0.0 0.0 57.5 32.5 8.000e-01 163 2.50e-02 12.1 0.0 0.0 55.3 32.6 9.000e-01 142 2.45e-02 10.7 0.0 0.0 56.6 32.7 1.000e+00 176 2.57e-02 12.6 0.0 0.0 55.5 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:47:17 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16403) exited] [Thread 0xffffe253f180 (LWP 16404) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16401) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16413)] [New Thread 0xffffe253f180 (LWP 16414)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16411 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 320f123d-2455-4f82-8781-8d9ddf173bdb Run started at : Mon Dec 9 15:47:30 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.0 0.0 0.4 148.3 -48.7 1.000e-01 253 3.18e-02 14.7 0.0 0.0 58.3 27.0 2.000e-01 152 2.45e-02 11.6 0.0 0.0 54.6 33.8 3.000e-01 150 2.42e-02 11.5 0.0 0.0 55.3 33.2 4.000e-01 155 2.46e-02 11.7 0.0 0.0 55.3 33.0 5.000e-01 139 2.47e-02 10.5 0.0 0.0 57.2 32.4 6.000e-01 124 2.43e-02 9.6 0.0 0.0 57.1 33.3 7.000e-01 130 2.45e-02 9.9 0.0 0.0 56.9 33.3 8.000e-01 163 2.51e-02 12.1 0.0 0.0 54.7 33.2 9.000e-01 142 2.52e-02 10.5 0.0 0.0 56.9 32.5 1.000e+00 176 2.57e-02 12.6 0.0 0.0 55.5 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:47:31 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16413) exited] [Thread 0xffffe253f180 (LWP 16414) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16411) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16423)] [New Thread 0xffffe253f180 (LWP 16424)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16421 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 4e224b32-32cb-4895-8fff-b5bfee127142 Run started at : Mon Dec 9 15:47:44 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.1 0.0 0.3 149.1 -49.5 1.000e-01 253 3.20e-02 14.4 0.0 0.0 57.8 27.8 2.000e-01 152 2.42e-02 11.6 0.0 0.0 54.6 33.8 3.000e-01 150 2.43e-02 11.5 0.0 0.0 55.3 33.2 4.000e-01 155 2.44e-02 11.8 0.0 0.0 55.3 32.9 5.000e-01 139 2.43e-02 10.6 0.0 0.0 56.5 33.0 6.000e-01 124 2.42e-02 9.6 0.0 0.0 57.3 33.1 7.000e-01 130 2.40e-02 10.1 0.0 0.0 56.7 33.2 8.000e-01 163 2.47e-02 12.2 0.0 0.0 55.7 32.1 9.000e-01 142 2.40e-02 11.0 0.0 0.0 56.4 32.7 1.000e+00 176 2.49e-02 13.0 0.0 0.0 54.7 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.0 Run finished at : Mon Dec 9 15:47:44 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16423) exited] [Thread 0xffffe253f180 (LWP 16424) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16421) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16433)] [New Thread 0xffffe253f180 (LWP 16434)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16431 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 3e71eb96-359d-4dbc-8916-b924c4df0eb4 Run started at : Mon Dec 9 15:47:58 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.1 0.0 0.4 149.6 -50.0 1.000e-01 253 3.20e-02 14.7 0.0 0.0 58.4 27.0 2.000e-01 152 2.45e-02 11.5 0.0 0.0 55.2 33.3 3.000e-01 150 2.46e-02 11.2 0.0 0.0 55.3 33.5 4.000e-01 155 2.50e-02 11.5 0.0 0.0 55.8 32.7 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.5 33.0 6.000e-01 124 2.40e-02 9.6 0.0 0.0 57.6 32.8 7.000e-01 130 2.43e-02 10.0 0.0 0.0 57.4 32.6 8.000e-01 163 2.52e-02 12.0 0.0 0.0 55.8 32.2 9.000e-01 142 2.47e-02 10.7 0.0 0.0 56.9 32.4 1.000e+00 176 2.52e-02 12.9 0.0 0.0 55.1 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:47:58 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16433) exited] [Thread 0xffffe253f180 (LWP 16434) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16431) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16443)] [New Thread 0xffffe253f180 (LWP 16444)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16441 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: e97257e6-eb3d-4749-8473-52e7fd5065dd Run started at : Mon Dec 9 15:48:11 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.0 0.0 0.4 149.1 -49.6 1.000e-01 253 3.21e-02 14.4 0.0 0.0 58.3 27.3 2.000e-01 152 2.45e-02 11.5 0.0 0.0 55.2 33.3 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.8 32.9 4.000e-01 155 2.44e-02 11.8 0.0 0.0 55.8 32.4 5.000e-01 139 2.42e-02 10.6 0.0 0.0 56.5 32.9 6.000e-01 124 2.38e-02 9.7 0.0 0.0 57.2 33.1 7.000e-01 130 2.41e-02 10.0 0.0 0.0 57.3 32.6 8.000e-01 163 2.51e-02 12.0 0.0 0.0 56.1 31.9 9.000e-01 142 2.46e-02 10.7 0.0 0.0 57.2 32.1 1.000e+00 176 2.52e-02 12.8 0.0 0.0 55.1 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:48:11 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16443) exited] [Thread 0xffffe253f180 (LWP 16444) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16441) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16453)] [New Thread 0xffffe253f180 (LWP 16454)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16451 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 394735db-3227-42c7-a7c6-9f9a0404d430 Run started at : Mon Dec 9 15:48:25 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.4 149.8 -50.2 1.000e-01 253 3.20e-02 14.6 0.0 0.0 58.5 26.9 2.000e-01 152 2.44e-02 11.6 0.0 0.0 55.6 32.8 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.5 33.1 4.000e-01 155 2.45e-02 11.8 0.0 0.0 55.5 32.6 5.000e-01 139 2.42e-02 10.8 0.0 0.0 56.8 32.4 6.000e-01 124 2.39e-02 9.7 0.0 0.0 57.8 32.5 7.000e-01 130 2.40e-02 10.1 0.0 0.0 57.4 32.5 8.000e-01 163 2.49e-02 12.2 0.0 0.0 56.0 31.9 9.000e-01 142 2.50e-02 10.6 0.0 0.0 56.1 33.3 1.000e+00 176 2.57e-02 12.7 0.0 0.0 55.3 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:48:25 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16453) exited] [Thread 0xffffe253f180 (LWP 16454) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16451) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16463)] [New Thread 0xffffe253f180 (LWP 16464)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16461 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 1c914989-1328-46dc-a731-94e0f4518757 Run started at : Mon Dec 9 15:48:38 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.4 149.0 -49.4 1.000e-01 253 3.22e-02 14.6 0.0 0.0 58.1 27.3 2.000e-01 152 2.44e-02 11.6 0.0 0.0 54.9 33.4 3.000e-01 150 2.42e-02 11.5 0.0 0.0 55.3 33.2 4.000e-01 155 2.46e-02 11.8 0.0 0.0 56.0 32.2 5.000e-01 139 2.42e-02 10.6 0.0 0.0 55.9 33.4 6.000e-01 124 2.38e-02 9.7 0.0 0.0 57.6 32.7 7.000e-01 130 2.40e-02 10.1 0.0 0.0 57.3 32.6 8.000e-01 163 2.55e-02 11.9 0.0 0.0 56.2 31.8 9.000e-01 142 2.51e-02 10.5 0.0 0.0 56.7 32.8 1.000e+00 176 2.54e-02 12.8 0.0 0.0 55.6 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:48:39 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16463) exited] [Thread 0xffffe253f180 (LWP 16464) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16461) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16473)] [New Thread 0xffffe253f180 (LWP 16474)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16471 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 0b8ae1b0-0aa3-41cf-aa36-62ecf8ff73c3 Run started at : Mon Dec 9 15:48:52 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.0 0.0 0.4 148.5 -48.9 1.000e-01 253 3.23e-02 14.5 0.0 0.0 58.4 27.1 2.000e-01 152 2.47e-02 11.3 0.0 0.0 55.5 33.2 3.000e-01 150 2.44e-02 11.5 0.0 0.0 55.2 33.4 4.000e-01 155 2.49e-02 11.5 0.0 0.0 55.3 33.2 5.000e-01 139 2.48e-02 10.4 0.0 0.0 56.4 33.2 6.000e-01 124 2.42e-02 9.6 0.0 0.0 57.5 32.9 7.000e-01 130 2.41e-02 10.1 0.0 0.0 56.9 33.0 8.000e-01 163 2.56e-02 11.8 0.0 0.0 56.5 31.7 9.000e-01 142 2.56e-02 10.3 0.0 0.0 55.7 34.0 1.000e+00 176 2.55e-02 12.6 0.0 0.0 55.3 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:48:52 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16473) exited] [Thread 0xffffe253f180 (LWP 16474) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16471) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16483)] [New Thread 0xffffe253f180 (LWP 16484)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16481 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: b1c6c815-3a79-4db3-b3d4-ea9812e33801 Run started at : Mon Dec 9 15:49:06 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.0 0.0 0.4 148.9 -49.3 1.000e-01 253 3.18e-02 14.8 0.0 0.0 58.3 26.9 2.000e-01 152 2.45e-02 11.6 0.0 0.0 54.7 33.7 3.000e-01 150 2.43e-02 11.4 0.0 0.0 55.6 33.0 4.000e-01 155 2.46e-02 11.7 0.0 0.0 55.7 32.6 5.000e-01 139 2.39e-02 10.8 0.0 0.0 56.5 32.6 6.000e-01 124 2.40e-02 9.6 0.0 0.0 57.1 33.3 7.000e-01 130 2.39e-02 10.1 0.0 0.0 57.0 32.9 8.000e-01 163 2.45e-02 12.3 0.0 0.0 55.3 32.4 9.000e-01 142 2.46e-02 10.7 0.0 0.0 56.7 32.6 1.000e+00 176 2.52e-02 12.9 0.0 0.0 54.9 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:49:06 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16483) exited] [Thread 0xffffe253f180 (LWP 16484) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16481) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16493)] [New Thread 0xffffe253f180 (LWP 16494)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16491 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 5c54d6aa-9bc9-403d-a4b5-0cf8dcd22b50 Run started at : Mon Dec 9 15:49:19 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.0 0.0 0.4 148.4 -48.8 1.000e-01 253 3.21e-02 14.5 0.0 0.0 58.0 27.5 2.000e-01 152 2.46e-02 11.5 0.0 0.0 55.5 33.0 3.000e-01 150 2.46e-02 11.3 0.0 0.0 56.2 32.5 4.000e-01 155 2.50e-02 11.5 0.0 0.0 56.1 32.5 5.000e-01 139 2.43e-02 10.6 0.0 0.0 56.8 32.6 6.000e-01 124 2.41e-02 9.6 0.0 0.0 57.6 32.8 7.000e-01 130 2.47e-02 9.8 0.0 0.0 57.9 32.3 8.000e-01 163 2.52e-02 12.0 0.0 0.0 55.9 32.1 9.000e-01 142 2.47e-02 10.6 0.0 0.0 57.1 32.3 1.000e+00 176 2.53e-02 12.9 0.0 0.0 55.6 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:49:19 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16493) exited] [Thread 0xffffe253f180 (LWP 16494) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16491) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16503)] [New Thread 0xffffe253f180 (LWP 16504)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16501 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 25da55a1-eee6-41f3-b101-b295315a3e1a Run started at : Mon Dec 9 15:49:33 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.4 149.0 -49.4 1.000e-01 253 3.25e-02 14.4 0.0 0.0 58.6 27.0 2.000e-01 152 2.46e-02 11.5 0.0 0.0 55.5 33.0 3.000e-01 150 2.46e-02 11.3 0.0 0.0 56.0 32.7 4.000e-01 155 2.51e-02 11.5 0.0 0.0 56.6 31.9 5.000e-01 139 2.47e-02 10.4 0.0 0.0 57.2 32.4 6.000e-01 124 2.41e-02 9.6 0.0 0.0 57.0 33.4 7.000e-01 130 2.46e-02 9.9 0.0 0.0 57.7 32.4 8.000e-01 163 2.54e-02 11.8 0.0 0.0 56.0 32.2 9.000e-01 142 2.50e-02 10.6 0.0 0.0 57.2 32.2 1.000e+00 176 2.53e-02 12.8 0.0 0.0 55.2 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:49:33 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16503) exited] [Thread 0xffffe253f180 (LWP 16504) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16501) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16513)] [New Thread 0xffffe253f180 (LWP 16514)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16511 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: defbad67-d381-4231-9ba2-eeae16a024e7 Run started at : Mon Dec 9 15:49:46 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.03e-02 0.0 0.0 0.4 148.5 -48.9 1.000e-01 253 3.19e-02 14.6 0.0 0.0 57.8 27.5 2.000e-01 152 2.41e-02 11.7 0.0 0.0 54.9 33.4 3.000e-01 150 2.42e-02 11.6 0.0 0.0 55.7 32.7 4.000e-01 155 2.44e-02 11.7 0.0 0.0 55.7 32.5 5.000e-01 139 2.43e-02 10.6 0.0 0.0 56.7 32.6 6.000e-01 124 2.37e-02 9.8 0.0 0.0 57.9 32.4 7.000e-01 130 2.42e-02 10.0 0.0 0.0 57.6 32.4 8.000e-01 163 2.54e-02 11.9 0.0 0.0 55.6 32.4 9.000e-01 142 2.46e-02 10.7 0.0 0.0 56.4 32.9 1.000e+00 176 2.53e-02 12.8 0.0 0.0 55.6 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:49:47 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16513) exited] [Thread 0xffffe253f180 (LWP 16514) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16511) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16523)] [New Thread 0xffffe253f180 (LWP 16524)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16521 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 719a6649-b4e8-401c-a6a0-d32751a9c419 Run started at : Mon Dec 9 15:50:00 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.0 0.0 0.4 149.3 -49.7 1.000e-01 253 3.22e-02 14.5 0.0 0.0 58.2 27.3 2.000e-01 152 2.38e-02 11.8 0.0 0.0 54.8 33.4 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.8 32.8 4.000e-01 155 2.46e-02 11.6 0.0 0.0 56.4 32.0 5.000e-01 139 2.47e-02 10.5 0.0 0.0 56.4 33.1 6.000e-01 124 2.38e-02 9.7 0.0 0.0 57.3 33.0 7.000e-01 130 2.46e-02 9.8 0.0 0.0 57.2 33.0 8.000e-01 163 2.52e-02 12.0 0.0 0.0 55.8 32.3 9.000e-01 142 2.49e-02 10.6 0.0 0.0 57.2 32.2 1.000e+00 176 2.53e-02 12.8 0.0 0.0 55.7 31.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:50:00 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16523) exited] [Thread 0xffffe253f180 (LWP 16524) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16521) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16533)] [New Thread 0xffffe253f180 (LWP 16534)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16531 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 2efb3ce3-a475-4d51-be96-bcc88951a69e Run started at : Mon Dec 9 15:50:13 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 -0.0 0.0 0.4 149.0 -49.3 1.000e-01 253 3.21e-02 14.6 0.0 0.0 58.1 27.3 2.000e-01 152 2.44e-02 11.5 0.0 0.0 55.1 33.4 3.000e-01 150 2.45e-02 11.4 0.0 0.0 56.5 32.1 4.000e-01 155 2.51e-02 11.5 0.0 0.0 56.5 32.0 5.000e-01 139 2.49e-02 10.4 0.0 0.0 57.0 32.6 6.000e-01 124 2.44e-02 9.5 0.0 0.0 57.2 33.4 7.000e-01 130 2.44e-02 9.9 0.0 0.0 57.5 32.6 8.000e-01 163 2.53e-02 11.8 0.0 0.0 56.4 31.8 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.8 32.6 1.000e+00 176 2.54e-02 12.8 0.0 0.0 55.2 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:50:14 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16533) exited] [Thread 0xffffe253f180 (LWP 16534) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16531) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16543)] [New Thread 0xffffe253f180 (LWP 16544)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16541 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: b379c428-bc23-47ff-8ed9-a4fb07085099 Run started at : Mon Dec 9 15:50:27 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.4 149.3 -49.9 1.000e-01 253 3.21e-02 14.5 0.0 0.0 58.0 27.5 2.000e-01 152 2.46e-02 11.3 0.0 0.0 55.3 33.3 3.000e-01 150 2.48e-02 11.3 0.0 0.0 55.8 33.0 4.000e-01 155 2.50e-02 11.5 0.0 0.0 56.1 32.4 5.000e-01 139 2.45e-02 10.5 0.0 0.0 56.6 33.0 6.000e-01 124 2.43e-02 9.6 0.0 0.0 57.5 32.9 7.000e-01 130 2.49e-02 9.7 0.0 0.0 58.2 32.1 8.000e-01 163 2.55e-02 11.8 0.0 0.0 56.3 31.9 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.8 32.6 1.000e+00 176 2.57e-02 12.6 0.0 0.0 55.4 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:50:27 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16543) exited] [Thread 0xffffe253f180 (LWP 16544) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16541) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16553)] [New Thread 0xffffe253f180 (LWP 16554)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16551 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 0e716ca1-45a6-4703-a72f-6f3dd8ff46d0 Run started at : Mon Dec 9 15:50:41 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.03e-02 0.0 0.0 0.4 148.1 -48.6 1.000e-01 253 3.18e-02 14.7 0.0 0.0 58.2 27.1 2.000e-01 152 2.41e-02 11.7 0.0 0.0 54.4 33.8 3.000e-01 150 2.42e-02 11.5 0.0 0.0 55.3 33.2 4.000e-01 155 2.43e-02 11.9 0.0 0.0 55.3 32.7 5.000e-01 139 2.43e-02 10.7 0.0 0.0 56.4 32.9 6.000e-01 124 2.39e-02 9.7 0.0 0.0 57.0 33.3 7.000e-01 130 2.44e-02 10.0 0.0 0.0 57.0 33.0 8.000e-01 163 2.51e-02 12.0 0.0 0.0 55.9 32.1 9.000e-01 142 2.47e-02 10.8 0.0 0.0 57.2 32.0 1.000e+00 176 2.55e-02 12.8 0.0 0.0 55.6 31.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:50:41 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16553) exited] [Thread 0xffffe253f180 (LWP 16554) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16551) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16563)] [New Thread 0xffffe253f180 (LWP 16564)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16561 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: fab4bc05-e4cb-4347-a283-54e9d84546c3 Run started at : Mon Dec 9 15:50:54 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.0 0.0 0.4 148.2 -48.6 1.000e-01 253 3.23e-02 14.4 0.0 0.0 58.8 26.8 2.000e-01 152 2.49e-02 11.4 0.0 0.0 55.3 33.3 3.000e-01 150 2.48e-02 11.3 0.0 0.0 56.1 32.6 4.000e-01 155 2.50e-02 11.6 0.0 0.0 56.1 32.3 5.000e-01 139 2.43e-02 10.7 0.0 0.0 56.6 32.7 6.000e-01 124 2.42e-02 9.6 0.0 0.0 57.3 33.1 7.000e-01 130 2.45e-02 9.9 0.0 0.0 57.5 32.6 8.000e-01 163 2.55e-02 11.8 0.0 0.0 56.2 32.0 9.000e-01 142 2.50e-02 10.6 0.0 0.0 57.4 32.0 1.000e+00 176 2.56e-02 12.8 0.0 0.0 55.6 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:50:55 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16563) exited] [Thread 0xffffe253f180 (LWP 16564) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16561) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Argument list to give program being debugged when it is started is "". Function "MPI_Comm_rank" not defined. Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16573)] [New Thread 0xffffe253f180 (LWP 16574)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16571 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3723820, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3723820) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3723820, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3723820, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3723820) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3723820, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 4e10cb40-4973-4912-ba18-1ccfe9533683 Run started at : Mon Dec 9 15:51:08 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.3 149.3 -49.7 1.000e-01 253 3.21e-02 14.5 0.0 0.0 57.9 27.6 2.000e-01 152 2.44e-02 11.5 0.0 0.0 55.4 33.1 3.000e-01 150 2.43e-02 11.4 0.0 0.0 55.7 32.9 4.000e-01 155 2.46e-02 11.9 0.0 0.0 55.5 32.6 5.000e-01 139 2.45e-02 10.5 0.0 0.0 56.8 32.6 6.000e-01 124 2.45e-02 9.5 0.0 0.0 57.5 33.0 7.000e-01 130 2.43e-02 10.0 0.0 0.0 56.6 33.4 8.000e-01 163 2.51e-02 12.0 0.0 0.0 56.0 32.0 9.000e-01 142 2.48e-02 10.7 0.0 0.0 57.4 32.0 1.000e+00 176 2.55e-02 12.8 0.0 0.0 55.5 31.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:51:08 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16573) exited] [Thread 0xffffe253f180 (LWP 16574) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16571) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16583)] [New Thread 0xffffe253f180 (LWP 16584)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16581 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: a938054c-c236-4fcd-ab1c-d190c083aced Run started at : Mon Dec 9 15:51:22 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.4 149.0 -49.5 1.000e-01 253 3.20e-02 14.6 0.0 0.0 58.1 27.3 2.000e-01 152 2.42e-02 11.6 0.0 0.0 55.1 33.2 3.000e-01 150 2.41e-02 11.5 0.0 0.0 55.6 33.0 4.000e-01 155 2.48e-02 11.5 0.0 0.0 55.3 33.1 5.000e-01 139 2.43e-02 10.7 0.0 0.0 55.9 33.4 6.000e-01 124 2.41e-02 9.6 0.0 0.0 57.6 32.8 7.000e-01 130 2.43e-02 10.1 0.0 0.0 57.0 32.9 8.000e-01 163 2.51e-02 12.0 0.0 0.0 55.4 32.6 9.000e-01 142 2.46e-02 10.8 0.0 0.0 56.5 32.7 1.000e+00 176 2.54e-02 12.8 0.0 0.0 55.0 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:51:22 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16583) exited] [Thread 0xffffe253f180 (LWP 16584) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16581) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16593)] [New Thread 0xffffe253f180 (LWP 16594)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16591 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3cbe650, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3cbe650) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3cbe650, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3cbe650, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3cbe650) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3cbe650, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 78f33389-7094-4057-bcb3-aac39dbaa732 Run started at : Mon Dec 9 15:51:35 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.02e-02 0.0 0.0 0.4 149.1 -49.5 1.000e-01 253 3.17e-02 14.6 0.0 0.0 58.2 27.2 2.000e-01 152 2.41e-02 11.7 0.0 0.0 54.8 33.5 3.000e-01 150 2.43e-02 11.5 0.0 0.0 55.4 33.0 4.000e-01 155 2.43e-02 11.8 0.0 0.0 56.0 32.2 5.000e-01 139 2.42e-02 10.7 0.0 0.0 56.8 32.5 6.000e-01 124 2.41e-02 9.6 0.0 0.0 57.8 32.6 7.000e-01 130 2.46e-02 9.8 0.0 0.0 57.7 32.5 8.000e-01 163 2.53e-02 11.9 0.0 0.0 56.4 31.7 9.000e-01 142 2.47e-02 10.7 0.0 0.0 57.3 32.0 1.000e+00 176 2.54e-02 12.7 0.0 0.0 55.5 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:51:36 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16593) exited] [Thread 0xffffe253f180 (LWP 16594) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16591) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16603)] [New Thread 0xffffe253f180 (LWP 16604)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16601 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: f0802577-0b63-466e-ba18-d94f876ca088 Run started at : Mon Dec 9 15:51:49 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.02e-02 0.0 0.0 0.4 148.5 -48.9 1.000e-01 253 3.18e-02 14.6 0.0 0.0 58.3 27.0 2.000e-01 152 2.43e-02 11.6 0.0 0.0 55.0 33.4 3.000e-01 150 2.44e-02 11.5 0.0 0.0 55.3 33.2 4.000e-01 155 2.48e-02 11.7 0.0 0.0 55.1 33.2 5.000e-01 139 2.43e-02 10.7 0.0 0.0 56.4 33.0 6.000e-01 124 2.36e-02 9.8 0.0 0.0 57.1 33.1 7.000e-01 130 2.38e-02 10.2 0.0 0.0 56.7 33.1 8.000e-01 163 2.53e-02 12.0 0.0 0.0 56.1 31.9 9.000e-01 142 2.46e-02 10.8 0.0 0.0 57.3 31.9 1.000e+00 176 2.52e-02 12.9 0.0 0.0 55.2 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:51:49 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16603) exited] [Thread 0xffffe253f180 (LWP 16604) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16601) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16613)] [New Thread 0xffffe253f180 (LWP 16614)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16611 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 0e48b845-e340-489a-90e3-d2ca1c999956 Run started at : Mon Dec 9 15:52:02 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.03e-02 0.0 0.0 0.4 150.1 -50.5 1.000e-01 253 3.20e-02 14.5 0.0 0.0 58.2 27.2 2.000e-01 152 2.47e-02 11.4 0.0 0.0 55.4 33.2 3.000e-01 150 2.50e-02 11.2 0.0 0.0 56.3 32.4 4.000e-01 155 2.48e-02 11.6 0.0 0.0 55.6 32.8 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.8 32.7 6.000e-01 124 2.44e-02 9.4 0.0 0.0 57.3 33.3 7.000e-01 130 2.46e-02 9.8 0.0 0.0 57.4 32.8 8.000e-01 163 2.47e-02 12.3 0.0 0.0 55.8 31.9 9.000e-01 142 2.45e-02 10.8 0.0 0.0 56.7 32.5 1.000e+00 176 2.52e-02 12.9 0.0 0.0 55.1 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:52:03 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16613) exited] [Thread 0xffffe253f180 (LWP 16614) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16611) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16623)] [New Thread 0xffffe253f180 (LWP 16624)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16621 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 1437451a-9af7-428d-85e3-6fdea073601e Run started at : Mon Dec 9 15:52:16 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.01e-02 0.1 0.0 0.4 150.2 -50.7 1.000e-01 253 3.20e-02 14.5 0.0 0.0 58.4 27.1 2.000e-01 152 2.43e-02 11.6 0.0 0.0 54.7 33.7 3.000e-01 150 2.45e-02 11.3 0.0 0.0 55.9 32.8 4.000e-01 155 2.45e-02 11.6 0.0 0.0 55.2 33.2 5.000e-01 139 2.44e-02 10.6 0.0 0.0 56.6 32.8 6.000e-01 124 2.40e-02 9.6 0.0 0.0 57.6 32.7 7.000e-01 130 2.40e-02 10.1 0.0 0.0 56.9 33.0 8.000e-01 163 2.48e-02 12.2 0.0 0.0 55.4 32.4 9.000e-01 142 2.43e-02 10.9 0.0 0.0 56.3 32.8 1.000e+00 176 2.49e-02 13.1 0.0 0.0 54.9 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.0 Run finished at : Mon Dec 9 15:52:16 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16623) exited] [Thread 0xffffe253f180 (LWP 16624) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16621) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16633)] [New Thread 0xffffe253f180 (LWP 16634)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16631 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 46474fd5-1a15-4444-8cd1-4d62f3323428 Run started at : Mon Dec 9 15:52:30 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.0 0.0 0.4 147.6 -48.0 1.000e-01 253 3.22e-02 14.5 0.0 0.0 58.4 27.0 2.000e-01 152 2.50e-02 11.2 0.0 0.0 55.8 33.0 3.000e-01 150 2.47e-02 11.4 0.0 0.0 55.6 32.9 4.000e-01 155 2.50e-02 11.5 0.0 0.0 56.7 31.9 5.000e-01 139 2.44e-02 10.6 0.0 0.0 57.3 32.1 6.000e-01 124 2.44e-02 9.5 0.0 0.0 58.3 32.2 7.000e-01 130 2.46e-02 9.8 0.0 0.0 57.5 32.7 8.000e-01 163 2.55e-02 11.8 0.0 0.0 56.4 31.8 9.000e-01 142 2.48e-02 10.6 0.0 0.0 57.9 31.5 1.000e+00 176 2.53e-02 12.8 0.0 0.0 55.9 31.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:52:30 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16633) exited] [Thread 0xffffe253f180 (LWP 16634) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16631) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16643)] [New Thread 0xffffe253f180 (LWP 16644)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16641 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 1dbefc44-ea64-4835-9063-bb035bf26379 Run started at : Mon Dec 9 15:52:43 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.1 0.0 0.4 149.2 -49.7 1.000e-01 253 3.21e-02 14.5 0.0 0.0 58.3 27.2 2.000e-01 152 2.44e-02 11.5 0.0 0.0 54.6 33.8 3.000e-01 150 2.45e-02 11.4 0.0 0.0 55.7 33.0 4.000e-01 155 2.47e-02 11.7 0.0 0.0 56.0 32.3 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.5 33.0 6.000e-01 124 2.43e-02 9.6 0.0 0.0 56.9 33.6 7.000e-01 130 2.43e-02 10.0 0.0 0.0 56.2 33.7 8.000e-01 163 2.50e-02 12.1 0.0 0.0 55.5 32.5 9.000e-01 142 2.47e-02 10.7 0.0 0.0 56.6 32.6 1.000e+00 176 2.56e-02 12.7 0.0 0.0 55.2 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:52:43 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16643) exited] [Thread 0xffffe253f180 (LWP 16644) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16641) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16653)] [New Thread 0xffffe253f180 (LWP 16654)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16651 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 2e0c8206-4e68-4024-ac9e-e4e0337f6142 Run started at : Mon Dec 9 15:52:57 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.1 0.0 0.4 149.7 -50.2 1.000e-01 253 3.24e-02 14.3 0.0 0.0 58.4 27.3 2.000e-01 152 2.44e-02 11.6 0.0 0.0 55.2 33.2 3.000e-01 150 2.44e-02 11.4 0.0 0.0 56.1 32.5 4.000e-01 155 2.51e-02 11.5 0.0 0.0 56.3 32.2 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.9 32.6 6.000e-01 124 2.41e-02 9.6 0.0 0.0 57.2 33.3 7.000e-01 130 2.41e-02 10.1 0.0 0.0 57.4 32.6 8.000e-01 163 2.50e-02 12.1 0.0 0.0 56.0 31.9 9.000e-01 142 2.49e-02 10.6 0.0 0.0 57.0 32.4 1.000e+00 176 2.57e-02 12.7 0.0 0.0 56.2 31.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:52:57 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16653) exited] [Thread 0xffffe253f180 (LWP 16654) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16651) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16663)] [New Thread 0xffffe253f180 (LWP 16664)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16661 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 39447b1b-ca3e-4ea1-bd40-289749b895b5 Run started at : Mon Dec 9 15:53:10 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.4 148.7 -49.1 1.000e-01 253 3.25e-02 14.4 0.0 0.0 58.6 27.0 2.000e-01 152 2.44e-02 11.6 0.0 0.0 54.8 33.6 3.000e-01 150 2.47e-02 11.3 0.0 0.0 56.0 32.7 4.000e-01 155 2.46e-02 11.8 0.0 0.0 56.0 32.3 5.000e-01 139 2.48e-02 10.5 0.0 0.0 57.4 32.1 6.000e-01 124 2.45e-02 9.5 0.0 0.0 57.9 32.7 7.000e-01 130 2.48e-02 9.7 0.0 0.0 58.0 32.4 8.000e-01 163 2.57e-02 11.7 0.0 0.0 56.2 32.1 9.000e-01 142 2.52e-02 10.6 0.0 0.0 57.0 32.4 1.000e+00 176 2.57e-02 12.7 0.0 0.0 55.3 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:53:11 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16663) exited] [Thread 0xffffe253f180 (LWP 16664) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16661) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16673)] [New Thread 0xffffe253f180 (LWP 16674)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16671 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 95f1fd3a-80a3-4af1-901c-c8d64fba73e6 Run started at : Mon Dec 9 15:53:24 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.0 0.0 0.4 149.6 -50.0 1.000e-01 253 3.24e-02 14.3 0.0 0.0 58.6 27.1 2.000e-01 152 2.50e-02 11.4 0.0 0.0 55.3 33.3 3.000e-01 150 2.48e-02 11.2 0.0 0.0 55.9 32.9 4.000e-01 155 2.50e-02 11.5 0.0 0.0 56.0 32.4 5.000e-01 139 2.46e-02 10.5 0.0 0.0 57.0 32.5 6.000e-01 124 2.44e-02 9.5 0.0 0.0 57.0 33.5 7.000e-01 130 2.43e-02 9.9 0.0 0.0 57.1 32.9 8.000e-01 163 2.55e-02 11.8 0.0 0.0 56.2 32.0 9.000e-01 142 2.54e-02 10.4 0.0 0.0 57.2 32.4 1.000e+00 176 2.57e-02 12.7 0.0 0.0 55.5 31.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:53:24 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16673) exited] [Thread 0xffffe253f180 (LWP 16674) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16671) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16683)] [New Thread 0xffffe253f180 (LWP 16684)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16681 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 1abed328-3e62-4b4e-a048-e805d9fac73e Run started at : Mon Dec 9 15:53:38 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.1 0.0 0.4 147.7 -48.2 1.000e-01 253 3.24e-02 14.4 0.0 0.0 58.4 27.2 2.000e-01 152 2.47e-02 11.4 0.0 0.0 55.4 33.2 3.000e-01 150 2.45e-02 11.4 0.0 0.0 55.2 33.4 4.000e-01 155 2.52e-02 11.4 0.0 0.0 55.4 33.2 5.000e-01 139 2.44e-02 10.6 0.0 0.0 56.2 33.2 6.000e-01 124 2.42e-02 9.5 0.0 0.0 58.0 32.4 7.000e-01 130 2.45e-02 9.9 0.0 0.0 57.3 32.8 8.000e-01 163 2.52e-02 12.0 0.0 0.0 56.0 32.0 9.000e-01 142 2.49e-02 10.8 0.0 0.0 56.9 32.3 1.000e+00 176 2.58e-02 12.6 0.0 0.0 56.0 31.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:53:38 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16683) exited] [Thread 0xffffe253f180 (LWP 16684) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16681) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16693)] [New Thread 0xffffe253f180 (LWP 16694)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16691 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 4c9f88b2-e8e1-4565-803a-836eba05e266 Run started at : Mon Dec 9 15:53:51 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.02e-02 0.1 0.0 0.4 148.6 -49.1 1.000e-01 253 3.19e-02 14.6 0.0 0.0 58.2 27.2 2.000e-01 152 2.43e-02 11.7 0.0 0.0 54.9 33.4 3.000e-01 150 2.39e-02 11.6 0.0 0.0 55.6 32.8 4.000e-01 155 2.44e-02 11.7 0.0 0.0 55.5 32.8 5.000e-01 139 2.38e-02 10.9 0.0 0.0 56.0 33.2 6.000e-01 124 2.35e-02 9.8 0.0 0.0 57.0 33.2 7.000e-01 130 2.38e-02 10.2 0.0 0.0 56.7 33.1 8.000e-01 163 2.45e-02 12.3 0.0 0.0 55.4 32.3 9.000e-01 142 2.43e-02 10.8 0.0 0.0 56.6 32.5 1.000e+00 176 2.50e-02 13.0 0.0 0.0 54.1 32.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.0 Run finished at : Mon Dec 9 15:53:52 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16693) exited] [Thread 0xffffe253f180 (LWP 16694) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16691) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16703)] [New Thread 0xffffe253f180 (LWP 16704)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16701 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 322f99c5-349b-4f98-b620-ed28da04620a Run started at : Mon Dec 9 15:54:05 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.0 0.0 0.4 149.5 -50.0 1.000e-01 253 3.22e-02 14.4 0.0 0.0 58.5 27.1 2.000e-01 152 2.45e-02 11.5 0.0 0.0 54.9 33.6 3.000e-01 150 2.45e-02 11.4 0.0 0.0 55.7 32.9 4.000e-01 155 2.48e-02 11.6 0.0 0.0 55.6 32.8 5.000e-01 139 2.42e-02 10.7 0.0 0.0 56.7 32.7 6.000e-01 124 2.42e-02 9.6 0.0 0.0 57.8 32.7 7.000e-01 130 2.43e-02 10.0 0.0 0.0 57.1 32.8 8.000e-01 163 2.52e-02 12.1 0.0 0.0 55.8 32.1 9.000e-01 142 2.44e-02 10.9 0.0 0.0 56.7 32.4 1.000e+00 176 2.55e-02 12.7 0.0 0.0 55.6 31.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:54:05 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16703) exited] [Thread 0xffffe253f180 (LWP 16704) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16701) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16713)] [New Thread 0xffffe253f180 (LWP 16714)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16711 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 52990903-0067-4707-bdbc-43ecdb709011 Run started at : Mon Dec 9 15:54:19 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.0 0.0 0.4 148.6 -49.1 1.000e-01 253 3.18e-02 14.6 0.0 0.0 58.0 27.4 2.000e-01 152 2.49e-02 11.3 0.0 0.0 54.0 34.7 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.3 33.3 4.000e-01 155 2.47e-02 11.7 0.0 0.0 55.7 32.6 5.000e-01 139 2.40e-02 10.7 0.0 0.0 56.4 32.9 6.000e-01 124 2.39e-02 9.7 0.0 0.0 57.0 33.3 7.000e-01 130 2.44e-02 10.0 0.0 0.0 57.5 32.6 8.000e-01 163 2.53e-02 11.8 0.0 0.0 55.5 32.7 9.000e-01 142 2.48e-02 10.6 0.0 0.0 56.5 32.9 1.000e+00 176 2.54e-02 12.8 0.0 0.0 54.7 32.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:54:19 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16713) exited] [Thread 0xffffe253f180 (LWP 16714) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16711) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16723)] [New Thread 0xffffe253f180 (LWP 16724)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16721 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 99114ec1-b41a-4bcc-8375-29bc416edfb3 Run started at : Mon Dec 9 15:54:32 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.0 0.0 0.4 149.0 -49.4 1.000e-01 253 3.23e-02 14.4 0.0 0.0 58.5 27.1 2.000e-01 152 2.43e-02 11.6 0.0 0.0 54.7 33.7 3.000e-01 150 2.43e-02 11.5 0.0 0.0 55.0 33.5 4.000e-01 155 2.43e-02 11.9 0.0 0.0 55.4 32.8 5.000e-01 139 2.40e-02 10.8 0.0 0.0 56.4 32.8 6.000e-01 124 2.38e-02 9.7 0.0 0.0 56.8 33.5 7.000e-01 130 2.40e-02 10.0 0.0 0.0 56.4 33.6 8.000e-01 163 2.49e-02 12.2 0.0 0.0 55.5 32.3 9.000e-01 142 2.46e-02 10.8 0.0 0.0 56.8 32.5 1.000e+00 176 2.55e-02 12.8 0.0 0.0 54.7 32.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:54:33 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16723) exited] [Thread 0xffffe253f180 (LWP 16724) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16721) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16733)] [New Thread 0xffffe253f180 (LWP 16734)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16731 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3723760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3723760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3723760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3723760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3723760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3723760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: c168d143-01cd-42e1-9562-729fb5cad960 Run started at : Mon Dec 9 15:54:46 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.03e-02 0.0 0.0 0.4 148.9 -49.3 1.000e-01 253 3.20e-02 14.5 0.0 0.0 58.2 27.3 2.000e-01 152 2.45e-02 11.5 0.0 0.0 54.6 33.8 3.000e-01 150 2.42e-02 11.5 0.0 0.0 55.2 33.4 4.000e-01 155 2.48e-02 11.6 0.0 0.0 55.9 32.5 5.000e-01 139 2.45e-02 10.6 0.0 0.0 56.3 33.1 6.000e-01 124 2.42e-02 9.6 0.0 0.0 57.3 33.1 7.000e-01 130 2.45e-02 9.8 0.0 0.0 57.4 32.8 8.000e-01 163 2.56e-02 11.7 0.0 0.0 56.6 31.7 9.000e-01 142 2.55e-02 10.4 0.0 0.0 57.2 32.3 1.000e+00 176 2.60e-02 12.6 0.0 0.0 55.7 31.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:54:46 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16733) exited] [Thread 0xffffe253f180 (LWP 16734) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16731) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16743)] [New Thread 0xffffe253f180 (LWP 16744)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16741 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 4e230159-120b-45e8-b430-d8b0c848d4a8 Run started at : Mon Dec 9 15:55:00 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.0 0.0 0.5 149.1 -49.6 1.000e-01 253 3.17e-02 14.7 0.0 0.0 58.1 27.2 2.000e-01 152 2.43e-02 11.5 0.0 0.0 54.5 34.0 3.000e-01 150 2.45e-02 11.3 0.0 0.0 55.0 33.6 4.000e-01 155 2.44e-02 11.9 0.0 0.0 55.7 32.5 5.000e-01 139 2.40e-02 10.8 0.0 0.0 56.3 33.0 6.000e-01 124 2.35e-02 9.8 0.0 0.0 57.0 33.2 7.000e-01 130 2.39e-02 10.0 0.0 0.0 56.4 33.6 8.000e-01 163 2.45e-02 12.3 0.0 0.0 55.0 32.7 9.000e-01 142 2.44e-02 10.8 0.0 0.0 56.5 32.7 1.000e+00 176 2.51e-02 13.0 0.0 0.0 55.3 31.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:55:00 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16743) exited] [Thread 0xffffe253f180 (LWP 16744) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16741) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16753)] [New Thread 0xffffe253f180 (LWP 16754)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16751 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 5adafc7e-c649-48be-9b06-bcc46fdd1b20 Run started at : Mon Dec 9 15:55:13 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.4 148.5 -48.9 1.000e-01 253 3.23e-02 14.4 0.0 0.0 58.6 27.0 2.000e-01 152 2.44e-02 11.5 0.0 0.0 55.3 33.1 3.000e-01 150 2.43e-02 11.5 0.0 0.0 55.4 33.1 4.000e-01 155 2.46e-02 11.8 0.0 0.0 55.5 32.7 5.000e-01 139 2.45e-02 10.6 0.0 0.0 57.0 32.4 6.000e-01 124 2.44e-02 9.6 0.0 0.0 58.0 32.3 7.000e-01 130 2.44e-02 9.9 0.0 0.0 57.0 33.1 8.000e-01 163 2.54e-02 11.8 0.0 0.0 56.2 32.0 9.000e-01 142 2.48e-02 10.6 0.0 0.0 57.1 32.3 1.000e+00 176 2.53e-02 12.8 0.0 0.0 55.6 31.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:55:14 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16753) exited] [Thread 0xffffe253f180 (LWP 16754) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16751) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16763)] [New Thread 0xffffe253f180 (LWP 16764)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16761 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 7cf12a1e-65d0-438f-9c60-793e8950f85b Run started at : Mon Dec 9 15:55:27 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.4 148.4 -48.8 1.000e-01 253 3.20e-02 14.7 0.0 0.0 58.2 27.1 2.000e-01 152 2.41e-02 11.7 0.0 0.0 55.1 33.2 3.000e-01 150 2.42e-02 11.5 0.0 0.0 55.2 33.3 4.000e-01 155 2.44e-02 11.8 0.0 0.0 55.7 32.6 5.000e-01 139 2.42e-02 10.7 0.0 0.0 56.0 33.3 6.000e-01 124 2.42e-02 9.7 0.0 0.0 57.2 33.1 7.000e-01 130 2.43e-02 10.0 0.0 0.0 57.3 32.7 8.000e-01 163 2.55e-02 12.0 0.0 0.0 55.3 32.6 9.000e-01 142 2.46e-02 10.8 0.0 0.0 56.8 32.4 1.000e+00 176 2.54e-02 12.8 0.0 0.0 55.5 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:55:27 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16763) exited] [Thread 0xffffe253f180 (LWP 16764) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16761) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16773)] [New Thread 0xffffe253f180 (LWP 16774)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16771 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3cbe650, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3cbe650) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3cbe650, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3cbe650, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3cbe650) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3cbe650, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 3963aeb9-085a-4425-84a6-dc003fd57543 Run started at : Mon Dec 9 15:55:41 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.02e-02 0.0 0.0 0.4 148.7 -49.1 1.000e-01 253 3.22e-02 14.4 0.0 0.0 58.4 27.2 2.000e-01 152 2.44e-02 11.6 0.0 0.0 55.1 33.3 3.000e-01 150 2.44e-02 11.4 0.0 0.0 55.1 33.5 4.000e-01 155 2.46e-02 11.6 0.0 0.0 55.0 33.4 5.000e-01 139 2.43e-02 10.7 0.0 0.0 56.3 33.1 6.000e-01 124 2.40e-02 9.7 0.0 0.0 57.8 32.6 7.000e-01 130 2.44e-02 9.9 0.0 0.0 57.5 32.6 8.000e-01 163 2.48e-02 12.1 0.0 0.0 55.3 32.6 9.000e-01 142 2.48e-02 10.6 0.0 0.0 56.9 32.4 1.000e+00 176 2.54e-02 12.8 0.0 0.0 54.9 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:55:41 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16773) exited] [Thread 0xffffe253f180 (LWP 16774) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16771) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Function "MPI_Comm_rank" not defined. Breakpoint 2 (MPI_Comm_rank) pending. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16783)] [New Thread 0xffffe253f180 (LWP 16784)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16781 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 68372fab-f493-4ed1-9e01-cccbbf6e5073 Run started at : Mon Dec 9 15:55:54 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.03e-02 0.1 0.0 0.4 148.8 -49.3 1.000e-01 253 3.22e-02 14.6 0.0 0.0 58.2 27.2 2.000e-01 152 2.44e-02 11.5 0.0 0.0 54.8 33.7 3.000e-01 150 2.46e-02 11.4 0.0 0.0 55.7 33.0 4.000e-01 155 2.46e-02 11.7 0.0 0.0 55.3 33.0 5.000e-01 139 2.44e-02 10.5 0.0 0.0 56.5 33.0 6.000e-01 124 2.37e-02 9.8 0.0 0.0 57.1 33.1 7.000e-01 130 2.44e-02 10.0 0.0 0.0 57.6 32.3 8.000e-01 163 2.51e-02 12.1 0.0 0.0 55.8 32.1 9.000e-01 142 2.47e-02 10.7 0.0 0.0 56.8 32.5 1.000e+00 176 2.54e-02 12.8 0.0 0.0 55.4 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:55:55 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16783) exited] [Thread 0xffffe253f180 (LWP 16784) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16781) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Argument list to give program being debugged when it is started is "". Function "MPI_Comm_rank" not defined. Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16793)] [New Thread 0xffffe253f180 (LWP 16794)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16791 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: c549b281-2a51-4cde-b8cd-ccfb6af05bfe Run started at : Mon Dec 9 15:56:08 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.1 0.0 0.4 149.1 -49.6 1.000e-01 253 3.22e-02 14.5 0.0 0.0 58.4 27.0 2.000e-01 152 2.46e-02 11.5 0.0 0.0 55.1 33.3 3.000e-01 150 2.47e-02 11.3 0.0 0.0 55.3 33.4 4.000e-01 155 2.48e-02 11.7 0.0 0.0 55.9 32.5 5.000e-01 139 2.47e-02 10.4 0.0 0.0 56.5 33.0 6.000e-01 124 2.48e-02 9.4 0.0 0.0 57.9 32.7 7.000e-01 130 2.50e-02 9.7 0.0 0.0 57.8 32.5 8.000e-01 163 2.53e-02 11.9 0.0 0.0 56.1 31.9 9.000e-01 142 2.49e-02 10.6 0.0 0.0 57.0 32.4 1.000e+00 176 2.58e-02 12.5 0.0 0.0 56.0 31.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:56:08 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16793) exited] [Thread 0xffffe253f180 (LWP 16794) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16791) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16803)] [New Thread 0xffffe253f180 (LWP 16804)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16801 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: cdacaff4-91ff-4bd9-ac9a-a78f4e1b4371 Run started at : Mon Dec 9 15:56:22 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.4 148.3 -48.9 1.000e-01 253 3.27e-02 14.3 0.0 0.0 58.5 27.3 2.000e-01 152 2.48e-02 11.4 0.0 0.0 54.7 34.0 3.000e-01 150 2.45e-02 11.3 0.0 0.0 55.3 33.4 4.000e-01 155 2.52e-02 11.4 0.0 0.0 56.2 32.4 5.000e-01 139 2.45e-02 10.6 0.0 0.0 56.0 33.5 6.000e-01 124 2.44e-02 9.5 0.0 0.0 57.4 33.1 7.000e-01 130 2.47e-02 9.9 0.0 0.0 57.5 32.6 8.000e-01 163 2.54e-02 11.9 0.0 0.0 56.1 32.0 9.000e-01 142 2.49e-02 10.5 0.0 0.0 56.7 32.7 1.000e+00 176 2.58e-02 12.5 0.0 0.0 55.5 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:56:22 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16803) exited] [Thread 0xffffe253f180 (LWP 16804) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16801) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16813)] [New Thread 0xffffe253f180 (LWP 16814)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16811 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 874b5a44-b540-4705-b4ad-ea41f8792d25 Run started at : Mon Dec 9 15:56:35 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.4 148.2 -48.7 1.000e-01 253 3.23e-02 14.4 0.0 0.0 58.3 27.3 2.000e-01 152 2.48e-02 11.3 0.0 0.0 55.6 33.1 3.000e-01 150 2.47e-02 11.3 0.0 0.0 56.4 32.3 4.000e-01 155 2.54e-02 11.3 0.0 0.0 56.8 31.9 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.5 33.0 6.000e-01 124 2.44e-02 9.5 0.0 0.0 57.6 33.0 7.000e-01 130 2.46e-02 9.7 0.0 0.0 57.7 32.5 8.000e-01 163 2.52e-02 11.9 0.0 0.0 55.7 32.4 9.000e-01 142 2.50e-02 10.6 0.0 0.0 57.2 32.2 1.000e+00 176 2.57e-02 12.6 0.0 0.0 55.9 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:56:36 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16813) exited] [Thread 0xffffe253f180 (LWP 16814) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16811) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16823)] [New Thread 0xffffe253f180 (LWP 16824)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16821 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: fe869f3b-58a5-4a93-8c9d-1682770e523c Run started at : Mon Dec 9 15:56:49 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 -0.0 0.0 0.5 148.6 -49.0 1.000e-01 253 3.30e-02 14.2 0.0 0.0 58.8 27.0 2.000e-01 152 2.46e-02 11.5 0.0 0.0 55.8 32.7 3.000e-01 150 2.47e-02 11.3 0.0 0.0 56.5 32.2 4.000e-01 155 2.46e-02 11.7 0.0 0.0 55.9 32.4 5.000e-01 139 2.46e-02 10.5 0.0 0.0 57.4 32.1 6.000e-01 124 2.44e-02 9.5 0.0 0.0 58.3 32.2 7.000e-01 130 2.48e-02 9.8 0.0 0.0 57.6 32.6 8.000e-01 163 2.57e-02 11.8 0.0 0.0 56.5 31.7 9.000e-01 142 2.54e-02 10.4 0.0 0.0 57.0 32.6 1.000e+00 176 2.60e-02 12.5 0.0 0.0 55.9 31.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:56:49 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16823) exited] [Thread 0xffffe253f180 (LWP 16824) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16821) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16833)] [New Thread 0xffffe253f180 (LWP 16834)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16831 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: b31aa052-f1df-4acc-b65a-ac0c60514dfa Run started at : Mon Dec 9 15:57:03 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.11e-02 0.1 0.0 0.3 147.9 -48.3 1.000e-01 253 3.29e-02 14.3 0.0 0.0 58.1 27.6 2.000e-01 152 2.50e-02 11.2 0.0 0.0 55.6 33.1 3.000e-01 150 2.50e-02 11.0 0.0 0.0 56.1 32.8 4.000e-01 155 2.51e-02 11.5 0.0 0.0 55.6 32.9 5.000e-01 139 2.50e-02 10.3 0.0 0.0 56.4 33.2 6.000e-01 124 2.45e-02 9.4 0.0 0.0 58.1 32.5 7.000e-01 130 2.45e-02 9.9 0.0 0.0 57.0 33.1 8.000e-01 163 2.56e-02 11.8 0.0 0.0 56.5 31.7 9.000e-01 142 2.50e-02 10.6 0.0 0.0 56.6 32.8 1.000e+00 176 2.55e-02 12.8 0.0 0.0 55.1 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:57:03 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16833) exited] [Thread 0xffffe253f180 (LWP 16834) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16831) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16843)] [New Thread 0xffffe253f180 (LWP 16844)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16841 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 28da196b-8342-4539-8749-42a34e5ae95b Run started at : Mon Dec 9 15:57:17 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 -0.1 0.0 0.5 148.1 -48.5 1.000e-01 253 3.25e-02 14.4 0.0 0.0 58.5 27.1 2.000e-01 152 2.47e-02 11.4 0.0 0.0 55.3 33.3 3.000e-01 150 2.48e-02 11.3 0.0 0.0 55.3 33.4 4.000e-01 155 2.48e-02 11.7 0.0 0.0 55.5 32.8 5.000e-01 139 2.44e-02 10.7 0.0 0.0 56.3 33.0 6.000e-01 124 2.43e-02 9.5 0.0 0.0 57.5 33.0 7.000e-01 130 2.47e-02 9.8 0.0 0.0 57.0 33.2 8.000e-01 163 2.51e-02 12.0 0.0 0.0 55.8 32.3 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.5 32.9 1.000e+00 176 2.55e-02 12.8 0.0 0.0 55.5 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:57:17 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16843) exited] [Thread 0xffffe253f180 (LWP 16844) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16841) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16853)] [New Thread 0xffffe253f180 (LWP 16854)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16851 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3d43bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3d43bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3d43bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3d43bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3d43bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3d43bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 8a3f51ff-63ec-4e98-9659-44113b3b2c2f Run started at : Mon Dec 9 15:57:30 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.4 148.1 -48.6 1.000e-01 253 3.29e-02 14.1 0.0 0.0 58.9 27.0 2.000e-01 152 2.47e-02 11.5 0.0 0.0 55.2 33.3 3.000e-01 150 2.47e-02 11.3 0.0 0.0 55.9 32.8 4.000e-01 155 2.52e-02 11.5 0.0 0.0 56.2 32.3 5.000e-01 139 2.48e-02 10.4 0.0 0.0 57.0 32.6 6.000e-01 124 2.47e-02 9.5 0.0 0.0 57.9 32.7 7.000e-01 130 2.45e-02 9.9 0.0 0.0 57.3 32.9 8.000e-01 163 2.54e-02 11.8 0.0 0.0 55.9 32.2 9.000e-01 142 2.50e-02 10.6 0.0 0.0 57.1 32.3 1.000e+00 176 2.60e-02 12.5 0.0 0.0 55.6 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:57:31 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16853) exited] [Thread 0xffffe253f180 (LWP 16854) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16851) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16863)] [New Thread 0xffffe253f180 (LWP 16864)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16861 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 96c4c6d6-78bc-4e1a-9091-a2c1acab8eb5 Run started at : Mon Dec 9 15:57:44 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.2 0.0 0.4 149.5 -50.0 1.000e-01 253 3.28e-02 14.3 0.0 0.0 58.7 27.0 2.000e-01 152 2.52e-02 11.2 0.0 0.0 55.9 32.9 3.000e-01 150 2.48e-02 11.3 0.0 0.0 56.2 32.5 4.000e-01 155 2.51e-02 11.4 0.0 0.0 56.1 32.5 5.000e-01 139 2.46e-02 10.5 0.0 0.0 57.0 32.5 6.000e-01 124 2.44e-02 9.5 0.0 0.0 58.1 32.3 7.000e-01 130 2.48e-02 9.8 0.0 0.0 58.3 31.9 8.000e-01 163 2.56e-02 11.8 0.0 0.0 56.6 31.6 9.000e-01 142 2.53e-02 10.5 0.0 0.0 57.6 31.9 1.000e+00 176 2.57e-02 12.7 0.0 0.0 56.2 31.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:57:44 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16863) exited] [Thread 0xffffe253f180 (LWP 16864) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16861) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16873)] [New Thread 0xffffe253f180 (LWP 16874)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16871 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: ec3d00f1-4c82-4f66-b726-1b048b384081 Run started at : Mon Dec 9 15:57:58 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.4 147.5 -48.0 1.000e-01 253 3.30e-02 13.9 0.0 0.0 58.8 27.2 2.000e-01 152 2.48e-02 11.4 0.0 0.0 55.2 33.4 3.000e-01 150 2.46e-02 11.4 0.0 0.0 55.2 33.4 4.000e-01 155 2.46e-02 11.8 0.0 0.0 55.8 32.5 5.000e-01 139 2.42e-02 10.7 0.0 0.0 56.3 33.0 6.000e-01 124 2.41e-02 9.6 0.0 0.0 57.0 33.4 7.000e-01 130 2.45e-02 9.9 0.0 0.0 57.5 32.6 8.000e-01 163 2.56e-02 11.8 0.0 0.0 56.5 31.7 9.000e-01 142 2.53e-02 10.4 0.0 0.0 56.6 32.9 1.000e+00 176 2.60e-02 12.5 0.0 0.0 55.0 32.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:57:58 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16873) exited] [Thread 0xffffe253f180 (LWP 16874) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16871) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16883)] [New Thread 0xffffe253f180 (LWP 16884)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16881 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: d29ea125-9615-470e-82a9-33f8befd7e54 Run started at : Mon Dec 9 15:58:12 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.1 0.0 0.3 148.2 -48.7 1.000e-01 253 3.28e-02 14.2 0.0 0.0 58.4 27.5 2.000e-01 152 2.53e-02 11.2 0.0 0.0 55.7 33.1 3.000e-01 150 2.48e-02 11.2 0.0 0.0 55.2 33.5 4.000e-01 155 2.50e-02 11.5 0.0 0.0 55.9 32.7 5.000e-01 139 2.51e-02 10.3 0.0 0.0 57.0 32.7 6.000e-01 124 2.45e-02 9.5 0.0 0.0 57.3 33.2 7.000e-01 130 2.47e-02 9.7 0.0 0.0 56.9 33.4 8.000e-01 163 2.56e-02 11.8 0.0 0.0 56.0 32.2 9.000e-01 142 2.55e-02 10.3 0.0 0.0 57.3 32.4 1.000e+00 176 2.59e-02 12.6 0.0 0.0 55.6 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:58:12 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16883) exited] [Thread 0xffffe253f180 (LWP 16884) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16881) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16893)] [New Thread 0xffffe253f180 (LWP 16894)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16891 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3723880, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3723880) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3723880, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3723880, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3723880) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3723880, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: c2c687d5-0a34-47e4-a5db-99f9d562c1f4 Run started at : Mon Dec 9 15:58:25 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.12e-02 0.1 0.0 0.3 148.4 -48.8 1.000e-01 253 3.25e-02 14.3 0.0 0.0 58.6 27.2 2.000e-01 152 2.47e-02 11.4 0.0 0.0 55.2 33.4 3.000e-01 150 2.49e-02 11.2 0.0 0.0 55.9 32.8 4.000e-01 155 2.49e-02 11.6 0.0 0.0 55.8 32.6 5.000e-01 139 2.47e-02 10.5 0.0 0.0 56.6 32.9 6.000e-01 124 2.44e-02 9.5 0.0 0.0 57.4 33.1 7.000e-01 130 2.45e-02 9.9 0.0 0.0 57.1 32.9 8.000e-01 163 2.56e-02 11.8 0.0 0.0 55.7 32.5 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.5 32.9 1.000e+00 176 2.59e-02 12.6 0.0 0.0 54.9 32.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:58:26 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe253f180 (LWP 16894) exited] [Thread 0xffffe2d4f180 (LWP 16893) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16891) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16903)] [New Thread 0xffffe253f180 (LWP 16904)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16901 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 51ae787e-825a-4f09-a321-28198b7f46d6 Run started at : Mon Dec 9 15:58:39 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.3 148.8 -49.2 1.000e-01 253 3.27e-02 14.3 0.0 0.0 58.6 27.2 2.000e-01 152 2.48e-02 11.4 0.0 0.0 54.7 33.9 3.000e-01 150 2.50e-02 11.1 0.0 0.0 56.6 32.3 4.000e-01 155 2.51e-02 11.5 0.0 0.0 55.8 32.8 5.000e-01 139 2.51e-02 10.3 0.0 0.0 57.1 32.5 6.000e-01 124 2.44e-02 9.5 0.0 0.0 57.2 33.3 7.000e-01 130 2.46e-02 9.9 0.0 0.0 57.1 33.0 8.000e-01 163 2.57e-02 11.9 0.0 0.0 55.7 32.4 9.000e-01 142 2.51e-02 10.5 0.0 0.0 56.8 32.8 1.000e+00 176 2.62e-02 12.5 0.0 0.0 55.8 31.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:58:39 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16903) exited] [Thread 0xffffe253f180 (LWP 16904) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16901) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16913)] [New Thread 0xffffe253f180 (LWP 16914)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16911 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 163e25e9-76ab-4cfc-8131-284435706249 Run started at : Mon Dec 9 15:58:53 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.04e-02 0.1 0.0 0.4 149.5 -50.0 1.000e-01 253 3.27e-02 14.3 0.0 0.0 58.8 26.9 2.000e-01 152 2.45e-02 11.6 0.0 0.0 54.6 33.9 3.000e-01 150 2.47e-02 11.3 0.0 0.0 55.8 32.9 4.000e-01 155 2.47e-02 11.7 0.0 0.0 55.0 33.3 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.2 33.3 6.000e-01 124 2.50e-02 9.3 0.0 0.0 58.0 32.7 7.000e-01 130 2.49e-02 9.8 0.0 0.0 57.6 32.7 8.000e-01 163 2.56e-02 11.8 0.0 0.0 56.0 32.2 9.000e-01 142 2.55e-02 10.4 0.0 0.0 57.3 32.3 1.000e+00 176 2.59e-02 12.5 0.0 0.0 55.9 31.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:58:53 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16913) exited] [Thread 0xffffe253f180 (LWP 16914) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16911) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16923)] [New Thread 0xffffe253f180 (LWP 16924)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16921 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 8992c3c9-8a72-43f6-a0c9-bb1e6c6440dc Run started at : Mon Dec 9 15:59:07 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.0 0.0 0.4 149.1 -49.5 1.000e-01 253 3.28e-02 14.3 0.0 0.0 58.7 27.0 2.000e-01 152 2.52e-02 11.1 0.0 0.0 55.3 33.5 3.000e-01 150 2.50e-02 11.2 0.0 0.0 55.8 33.0 4.000e-01 155 2.54e-02 11.3 0.0 0.0 55.7 32.9 5.000e-01 139 2.51e-02 10.3 0.0 0.0 56.4 33.3 6.000e-01 124 2.47e-02 9.3 0.0 0.0 57.3 33.4 7.000e-01 130 2.49e-02 9.7 0.0 0.0 57.6 32.7 8.000e-01 163 2.56e-02 11.8 0.0 0.0 55.9 32.4 9.000e-01 142 2.49e-02 10.5 0.0 0.0 56.7 32.7 1.000e+00 176 2.56e-02 12.7 0.0 0.0 54.7 32.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:59:07 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16923) exited] [Thread 0xffffe253f180 (LWP 16924) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16921) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16933)] [New Thread 0xffffe253f180 (LWP 16934)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16931 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 692e0791-2543-4daa-944e-af7e71f89cca Run started at : Mon Dec 9 15:59:21 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.1 0.0 0.4 148.6 -49.0 1.000e-01 253 3.30e-02 14.2 0.0 0.0 58.4 27.4 2.000e-01 152 2.52e-02 11.2 0.0 0.0 55.5 33.3 3.000e-01 150 2.49e-02 11.1 0.0 0.0 55.7 33.2 4.000e-01 155 2.52e-02 11.4 0.0 0.0 55.5 33.1 5.000e-01 139 2.50e-02 10.4 0.0 0.0 56.4 33.2 6.000e-01 124 2.47e-02 9.4 0.0 0.0 57.8 32.8 7.000e-01 130 2.49e-02 9.8 0.0 0.0 57.3 33.0 8.000e-01 163 2.58e-02 11.7 0.0 0.0 55.9 32.4 9.000e-01 142 2.55e-02 10.4 0.0 0.0 57.0 32.6 1.000e+00 176 2.64e-02 12.3 0.0 0.0 55.6 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:59:21 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16933) exited] [Thread 0xffffe253f180 (LWP 16934) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16931) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16943)] [New Thread 0xffffe253f180 (LWP 16944)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16941 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe36c6650, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe36c6650) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe36c6650, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe36c6650, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe36c6650) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe36c6650, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: cd2b8d25-719e-46e9-9cb4-f2b9eece3961 Run started at : Mon Dec 9 15:59:35 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 -0.0 0.0 0.4 148.4 -48.8 1.000e-01 253 3.27e-02 14.4 0.0 0.0 57.9 27.8 2.000e-01 152 2.46e-02 11.5 0.0 0.0 54.8 33.6 3.000e-01 150 2.49e-02 11.1 0.0 0.0 55.3 33.6 4.000e-01 155 2.48e-02 11.6 0.0 0.0 55.5 32.9 5.000e-01 139 2.45e-02 10.5 0.0 0.0 55.5 33.9 6.000e-01 124 2.43e-02 9.5 0.0 0.0 56.8 33.7 7.000e-01 130 2.46e-02 9.9 0.0 0.0 56.4 33.7 8.000e-01 163 2.55e-02 11.8 0.0 0.0 55.2 33.0 9.000e-01 142 2.53e-02 10.5 0.0 0.0 56.4 33.1 1.000e+00 176 2.57e-02 12.6 0.0 0.0 55.1 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:59:35 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16943) exited] [Thread 0xffffe253f180 (LWP 16944) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16941) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16953)] [New Thread 0xffffe253f180 (LWP 16954)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16951 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: f6571511-c535-4dec-bccf-d3ac5c59a5f6 Run started at : Mon Dec 9 15:59:49 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.4 148.7 -49.1 1.000e-01 253 3.29e-02 14.2 0.0 0.0 58.3 27.5 2.000e-01 152 2.51e-02 11.3 0.0 0.0 55.6 33.2 3.000e-01 150 2.50e-02 11.3 0.0 0.0 55.7 33.0 4.000e-01 155 2.53e-02 11.3 0.0 0.0 56.3 32.3 5.000e-01 139 2.52e-02 10.3 0.0 0.0 56.7 33.1 6.000e-01 124 2.48e-02 9.4 0.0 0.0 57.5 33.1 7.000e-01 130 2.49e-02 9.7 0.0 0.0 57.5 32.8 8.000e-01 163 2.54e-02 11.8 0.0 0.0 55.5 32.7 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.4 33.0 1.000e+00 176 2.59e-02 12.5 0.0 0.0 55.0 32.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 15:59:49 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16953) exited] [Thread 0xffffe253f180 (LWP 16954) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16951) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16963)] [New Thread 0xffffe253f180 (LWP 16964)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16961 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: b5518339-20cc-4a1a-9b24-90d259b75d55 Run started at : Mon Dec 9 16:00:03 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.11e-02 0.1 0.0 0.4 148.8 -49.3 1.000e-01 253 3.28e-02 14.2 0.0 0.0 58.2 27.6 2.000e-01 152 2.47e-02 11.5 0.0 0.0 54.7 33.8 3.000e-01 150 2.49e-02 11.2 0.0 0.0 55.6 33.3 4.000e-01 155 2.51e-02 11.5 0.0 0.0 55.6 32.8 5.000e-01 139 2.48e-02 10.4 0.0 0.0 56.6 32.9 6.000e-01 124 2.49e-02 9.4 0.0 0.0 56.9 33.7 7.000e-01 130 2.48e-02 9.8 0.0 0.0 57.1 33.1 8.000e-01 163 2.57e-02 11.8 0.0 0.0 55.4 32.8 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.7 32.7 1.000e+00 176 2.54e-02 12.8 0.0 0.0 54.6 32.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:00:03 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16963) exited] [Thread 0xffffe253f180 (LWP 16964) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16961) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16973)] [New Thread 0xffffe253f180 (LWP 16974)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16971 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 778d86a0-b649-4753-b9ee-9f1f60958648 Run started at : Mon Dec 9 16:00:17 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.1 0.0 0.4 149.2 -49.7 1.000e-01 253 3.28e-02 14.4 0.0 0.0 58.1 27.5 2.000e-01 152 2.49e-02 11.3 0.0 0.0 54.6 34.1 3.000e-01 150 2.46e-02 11.2 0.0 0.0 55.3 33.5 4.000e-01 155 2.49e-02 11.7 0.0 0.0 55.1 33.2 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.5 33.0 6.000e-01 124 2.44e-02 9.5 0.0 0.0 57.1 33.4 7.000e-01 130 2.47e-02 10.2 0.0 0.0 57.1 32.7 8.000e-01 163 2.57e-02 11.8 0.0 0.0 55.8 32.4 9.000e-01 142 2.53e-02 10.5 0.0 0.0 56.6 32.9 1.000e+00 176 2.58e-02 12.6 0.0 0.0 54.8 32.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:00:17 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16973) exited] [Thread 0xffffe253f180 (LWP 16974) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16971) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16983)] [New Thread 0xffffe253f180 (LWP 16984)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16981 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 168ea882-8d9d-486c-a730-8ed5d668d7e8 Run started at : Mon Dec 9 16:00:31 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 -0.0 0.0 0.5 149.1 -49.5 1.000e-01 253 3.29e-02 14.2 0.0 0.0 58.6 27.2 2.000e-01 152 2.46e-02 11.5 0.0 0.0 54.9 33.6 3.000e-01 150 2.48e-02 11.3 0.0 0.0 55.6 33.1 4.000e-01 155 2.49e-02 11.6 0.0 0.0 55.6 32.9 5.000e-01 139 2.44e-02 10.6 0.0 0.0 56.0 33.3 6.000e-01 124 2.43e-02 9.6 0.0 0.0 57.0 33.4 7.000e-01 130 2.45e-02 9.9 0.0 0.0 57.0 33.1 8.000e-01 163 2.52e-02 12.0 0.0 0.0 55.4 32.5 9.000e-01 142 2.53e-02 10.5 0.0 0.0 57.5 32.0 1.000e+00 176 2.65e-02 12.3 0.0 0.0 54.6 33.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:00:31 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16983) exited] [Thread 0xffffe253f180 (LWP 16984) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16981) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 16993)] [New Thread 0xffffe253f180 (LWP 16994)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 16991 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: fbd3563c-dd09-4441-a882-61ea439cc716 Run started at : Mon Dec 9 16:00:45 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.11e-02 -0.0 0.0 0.4 147.7 -48.1 1.000e-01 253 3.27e-02 14.2 0.0 0.0 58.6 27.2 2.000e-01 152 2.46e-02 11.4 0.0 0.0 54.6 34.0 3.000e-01 150 2.47e-02 11.3 0.0 0.0 55.4 33.3 4.000e-01 155 2.48e-02 11.6 0.0 0.0 55.4 32.9 5.000e-01 139 2.47e-02 10.5 0.0 0.0 56.3 33.2 6.000e-01 124 2.43e-02 9.6 0.0 0.0 57.0 33.4 7.000e-01 130 2.47e-02 9.8 0.0 0.0 56.5 33.6 8.000e-01 163 2.63e-02 11.5 0.0 0.0 56.0 32.6 9.000e-01 142 2.54e-02 10.3 0.0 0.0 56.5 33.2 1.000e+00 176 2.58e-02 12.6 0.0 0.0 54.7 32.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:00:45 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 16993) exited] [Thread 0xffffe253f180 (LWP 16994) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 16991) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17003)] [New Thread 0xffffe253f180 (LWP 17004)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17001 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xfffff751b3a0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xfffff751b3a0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xfffff751b3a0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xfffff751b3a0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xfffff751b3a0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xfffff751b3a0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 42da10c5-abac-4983-a825-7f3089d53e93 Run started at : Mon Dec 9 16:00:59 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.12e-02 0.1 0.0 0.3 148.7 -49.2 1.000e-01 253 3.31e-02 14.1 0.0 0.0 58.6 27.3 2.000e-01 152 2.51e-02 11.2 0.0 0.0 54.9 33.9 3.000e-01 150 2.53e-02 11.0 0.0 0.0 55.7 33.3 4.000e-01 155 2.49e-02 11.5 0.0 0.0 55.6 32.8 5.000e-01 139 2.47e-02 10.5 0.0 0.0 56.8 32.7 6.000e-01 124 2.43e-02 9.5 0.0 0.0 57.2 33.3 7.000e-01 130 2.52e-02 10.1 0.0 0.0 56.8 33.1 8.000e-01 163 2.59e-02 11.7 0.0 0.0 56.0 32.3 9.000e-01 142 2.56e-02 10.4 0.0 0.0 57.6 32.1 1.000e+00 176 2.61e-02 12.5 0.0 0.0 56.1 31.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:00:59 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17003) exited] [Thread 0xffffe253f180 (LWP 17004) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17001) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17013)] [New Thread 0xffffe253f180 (LWP 17014)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17011 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 7faa8dc7-a1fd-43e0-8bbf-6b310fbae172 Run started at : Mon Dec 9 16:01:13 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.11e-02 -0.0 0.0 0.4 148.3 -48.7 1.000e-01 253 3.30e-02 14.1 0.0 0.0 58.6 27.4 2.000e-01 152 2.51e-02 11.4 0.0 0.0 55.0 33.6 3.000e-01 150 2.50e-02 11.1 0.0 0.0 55.9 33.0 4.000e-01 155 2.53e-02 11.4 0.0 0.0 55.8 32.8 5.000e-01 139 2.51e-02 10.3 0.0 0.0 57.1 32.6 6.000e-01 124 2.49e-02 9.3 0.0 0.0 58.2 32.4 7.000e-01 130 2.54e-02 9.5 0.0 0.0 57.7 32.8 8.000e-01 163 2.59e-02 11.6 0.0 0.0 56.2 32.2 9.000e-01 142 2.58e-02 10.3 0.0 0.0 57.3 32.4 1.000e+00 176 2.62e-02 12.4 0.0 0.0 55.7 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:01:13 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17013) exited] [Thread 0xffffe253f180 (LWP 17014) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17011) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17023)] [New Thread 0xffffe253f180 (LWP 17024)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17021 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 01af8c7b-f9ea-4a01-aaf5-c7ee3dce50c9 Run started at : Mon Dec 9 16:01:27 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.4 148.8 -49.3 1.000e-01 253 3.24e-02 14.3 0.0 0.0 58.2 27.5 2.000e-01 152 2.48e-02 11.4 0.0 0.0 54.7 33.9 3.000e-01 150 2.46e-02 11.3 0.0 0.0 55.7 33.0 4.000e-01 155 2.49e-02 11.5 0.0 0.0 55.4 33.1 5.000e-01 139 2.47e-02 10.4 0.0 0.0 55.7 33.9 6.000e-01 124 2.47e-02 9.4 0.0 0.0 57.5 33.2 7.000e-01 130 2.44e-02 10.0 0.0 0.0 56.9 33.1 8.000e-01 163 2.53e-02 12.0 0.0 0.0 55.5 32.5 9.000e-01 142 2.52e-02 10.5 0.0 0.0 56.8 32.7 1.000e+00 176 2.59e-02 12.6 0.0 0.0 55.2 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:01:27 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17023) exited] [Thread 0xffffe253f180 (LWP 17024) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17021) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17033)] [New Thread 0xffffe253f180 (LWP 17034)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17031 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3d43bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3d43bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3d43bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3d43bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3d43bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3d43bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: ab04a862-36b6-46ac-8eac-a574731164f3 Run started at : Mon Dec 9 16:01:41 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.1 0.0 0.4 148.6 -49.0 1.000e-01 253 3.26e-02 14.3 0.0 0.0 58.0 27.7 2.000e-01 152 2.45e-02 11.5 0.0 0.0 54.1 34.3 3.000e-01 150 2.47e-02 11.3 0.0 0.0 55.4 33.3 4.000e-01 155 2.50e-02 11.5 0.0 0.0 55.8 32.7 5.000e-01 139 2.45e-02 10.7 0.0 0.0 55.8 33.5 6.000e-01 124 2.42e-02 9.5 0.0 0.0 56.6 33.9 7.000e-01 130 2.46e-02 9.9 0.0 0.0 56.8 33.2 8.000e-01 163 2.53e-02 11.9 0.0 0.0 55.4 32.7 9.000e-01 142 2.51e-02 10.6 0.0 0.0 56.1 33.3 1.000e+00 176 2.58e-02 12.7 0.0 0.0 54.9 32.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:01:41 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17033) exited] [Thread 0xffffe253f180 (LWP 17034) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17031) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17043)] [New Thread 0xffffe253f180 (LWP 17044)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17041 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3723820, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3723820) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3723820, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3723820, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3723820) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3723820, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: faf2c595-a449-4833-aff1-f6de690e59ae Run started at : Mon Dec 9 16:01:55 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.12e-02 0.0 0.0 0.4 149.2 -49.6 1.000e-01 253 3.27e-02 14.3 0.0 0.0 58.5 27.2 2.000e-01 152 2.51e-02 11.2 0.0 0.0 55.3 33.5 3.000e-01 150 2.51e-02 11.1 0.0 0.0 56.1 32.8 4.000e-01 155 2.52e-02 11.3 0.0 0.0 55.6 33.2 5.000e-01 139 2.54e-02 10.2 0.0 0.0 57.3 32.5 6.000e-01 124 2.48e-02 9.3 0.0 0.0 57.2 33.5 7.000e-01 130 2.49e-02 9.8 0.0 0.0 57.1 33.2 8.000e-01 163 2.58e-02 11.7 0.0 0.0 55.9 32.4 9.000e-01 142 2.53e-02 10.5 0.0 0.0 56.6 32.9 1.000e+00 176 2.61e-02 12.4 0.0 0.0 55.3 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:01:55 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17043) exited] [Thread 0xffffe253f180 (LWP 17044) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17041) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17053)] [New Thread 0xffffe253f180 (LWP 17054)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17051 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 15bc73cd-c37a-4516-8549-f1ce0556de95 Run started at : Mon Dec 9 16:02:09 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.1 0.0 0.4 150.2 -50.7 1.000e-01 253 3.26e-02 14.3 0.0 0.0 58.4 27.3 2.000e-01 152 2.46e-02 11.4 0.0 0.0 54.5 34.0 3.000e-01 150 2.47e-02 11.3 0.0 0.0 55.4 33.3 4.000e-01 155 2.49e-02 11.7 0.0 0.0 55.5 32.8 5.000e-01 139 2.47e-02 10.5 0.0 0.0 56.7 32.9 6.000e-01 124 2.46e-02 9.4 0.0 0.0 57.2 33.3 7.000e-01 130 2.50e-02 9.7 0.0 0.0 57.2 33.1 8.000e-01 163 2.54e-02 11.9 0.0 0.0 55.5 32.6 9.000e-01 142 2.53e-02 10.5 0.0 0.0 56.8 32.7 1.000e+00 176 2.60e-02 12.4 0.0 0.0 55.0 32.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:02:09 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17053) exited] [Thread 0xffffe253f180 (LWP 17054) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17051) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17063)] [New Thread 0xffffe253f180 (LWP 17064)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17061 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 68099505-fbfd-4d18-9768-842b0d672281 Run started at : Mon Dec 9 16:02:22 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.12e-02 0.0 0.0 0.4 148.8 -49.3 1.000e-01 253 3.27e-02 14.3 0.0 0.0 58.2 27.6 2.000e-01 152 2.47e-02 11.3 0.0 0.0 55.0 33.7 3.000e-01 150 2.47e-02 11.2 0.0 0.0 55.1 33.7 4.000e-01 155 2.52e-02 11.4 0.0 0.0 55.7 32.9 5.000e-01 139 2.48e-02 10.4 0.0 0.0 56.1 33.4 6.000e-01 124 2.47e-02 9.4 0.0 0.0 57.2 33.4 7.000e-01 130 2.49e-02 9.7 0.0 0.0 57.3 33.0 8.000e-01 163 2.56e-02 11.7 0.0 0.0 55.4 32.9 9.000e-01 142 2.51e-02 10.5 0.0 0.0 56.7 32.8 1.000e+00 176 2.60e-02 12.5 0.0 0.0 55.6 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:02:23 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17063) exited] [Thread 0xffffe253f180 (LWP 17064) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17061) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17073)] [New Thread 0xffffe253f180 (LWP 17074)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17071 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 95e23c9e-7f02-4e45-8a1b-4db316e07e77 Run started at : Mon Dec 9 16:02:36 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.13e-02 0.0 0.0 0.4 148.7 -49.1 1.000e-01 253 3.31e-02 14.0 0.0 0.0 58.9 27.1 2.000e-01 152 2.49e-02 11.4 0.0 0.0 55.1 33.5 3.000e-01 150 2.54e-02 10.9 0.0 0.0 56.3 32.8 4.000e-01 155 2.60e-02 11.1 0.0 0.0 56.2 32.8 5.000e-01 139 2.53e-02 10.2 0.0 0.0 56.7 33.0 6.000e-01 124 2.47e-02 9.4 0.0 0.0 57.4 33.1 7.000e-01 130 2.49e-02 9.7 0.0 0.0 57.4 33.0 8.000e-01 163 2.57e-02 11.7 0.0 0.0 55.8 32.5 9.000e-01 142 2.52e-02 10.5 0.0 0.0 56.5 32.9 1.000e+00 176 2.63e-02 12.4 0.0 0.0 55.7 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:02:37 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17073) exited] [Thread 0xffffe253f180 (LWP 17074) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17071) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17083)] [New Thread 0xffffe253f180 (LWP 17084)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17081 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 97e64fcc-d766-4d5c-b6ca-5f5db3d89742 Run started at : Mon Dec 9 16:02:50 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.14e-02 0.1 0.0 0.4 148.1 -48.6 1.000e-01 253 3.32e-02 14.1 0.0 0.0 59.0 26.9 2.000e-01 152 2.53e-02 11.3 0.0 0.0 55.3 33.3 3.000e-01 150 2.52e-02 11.1 0.0 0.0 56.5 32.3 4.000e-01 155 2.56e-02 11.2 0.0 0.0 56.7 32.1 5.000e-01 139 2.54e-02 10.2 0.0 0.0 57.6 32.2 6.000e-01 124 2.51e-02 9.3 0.0 0.0 57.7 33.1 7.000e-01 130 2.52e-02 9.7 0.0 0.0 57.7 32.6 8.000e-01 163 2.62e-02 11.6 0.0 0.0 56.2 32.2 9.000e-01 142 2.54e-02 10.5 0.0 0.0 57.6 32.0 1.000e+00 176 2.63e-02 12.4 0.0 0.0 56.3 31.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:02:51 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe253f180 (LWP 17084) exited] [Thread 0xffffe2d4f180 (LWP 17083) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17081) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17093)] [New Thread 0xffffe253f180 (LWP 17094)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17091 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: f92dfef6-0574-4c77-b910-7e768d1a723f Run started at : Mon Dec 9 16:03:04 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.4 148.8 -49.2 1.000e-01 253 3.28e-02 14.3 0.0 0.0 58.4 27.3 2.000e-01 152 2.48e-02 11.4 0.0 0.0 55.2 33.4 3.000e-01 150 2.53e-02 10.9 0.0 0.0 56.7 32.4 4.000e-01 155 2.51e-02 11.5 0.0 0.0 55.4 33.1 5.000e-01 139 2.48e-02 10.4 0.0 0.0 56.7 32.9 6.000e-01 124 2.45e-02 9.5 0.0 0.0 58.1 32.4 7.000e-01 130 2.53e-02 9.6 0.0 0.0 58.0 32.4 8.000e-01 163 2.55e-02 11.9 0.0 0.0 56.1 32.0 9.000e-01 142 2.52e-02 10.5 0.0 0.0 56.5 32.9 1.000e+00 176 2.58e-02 12.6 0.0 0.0 55.5 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:03:05 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17093) exited] [Thread 0xffffe253f180 (LWP 17094) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17091) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17103)] [New Thread 0xffffe253f180 (LWP 17104)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17101 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 98043fed-f32c-462f-ae98-c336f1578320 Run started at : Mon Dec 9 16:03:18 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.0 0.0 0.4 149.0 -49.4 1.000e-01 253 3.26e-02 14.2 0.0 0.0 58.5 27.2 2.000e-01 152 2.49e-02 11.3 0.0 0.0 54.7 34.0 3.000e-01 150 2.48e-02 11.2 0.0 0.0 55.9 32.9 4.000e-01 155 2.54e-02 11.3 0.0 0.0 55.4 33.2 5.000e-01 139 2.50e-02 10.4 0.0 0.0 56.6 33.1 6.000e-01 124 2.45e-02 9.4 0.0 0.0 57.6 33.1 7.000e-01 130 2.48e-02 9.8 0.0 0.0 57.3 32.9 8.000e-01 163 2.57e-02 11.8 0.0 0.0 56.4 31.8 9.000e-01 142 2.52e-02 10.5 0.0 0.0 57.2 32.3 1.000e+00 176 2.63e-02 12.4 0.0 0.0 55.8 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:03:19 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17103) exited] [Thread 0xffffe253f180 (LWP 17104) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17101) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17113)] [New Thread 0xffffe253f180 (LWP 17114)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17111 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: dbb96a75-872d-4703-8a97-9068603f0ac2 Run started at : Mon Dec 9 16:03:32 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.3 149.6 -50.0 1.000e-01 253 3.30e-02 14.2 0.0 0.0 58.4 27.4 2.000e-01 152 2.50e-02 11.2 0.0 0.0 55.3 33.5 3.000e-01 150 2.50e-02 11.1 0.0 0.0 55.4 33.4 4.000e-01 155 2.51e-02 11.5 0.0 0.0 55.9 32.6 5.000e-01 139 2.45e-02 10.6 0.0 0.0 56.7 32.7 6.000e-01 124 2.47e-02 9.3 0.0 0.0 57.7 33.0 7.000e-01 130 2.47e-02 9.9 0.0 0.0 57.2 33.0 8.000e-01 163 2.56e-02 11.7 0.0 0.0 56.3 32.0 9.000e-01 142 2.53e-02 10.4 0.0 0.0 57.0 32.6 1.000e+00 176 2.61e-02 12.5 0.0 0.0 55.7 31.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:03:33 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17113) exited] [Thread 0xffffe253f180 (LWP 17114) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17111) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17123)] [New Thread 0xffffe253f180 (LWP 17124)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17121 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: b62c72c1-f546-475d-8ef4-3276bae16d02 Run started at : Mon Dec 9 16:03:46 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.0 0.0 0.4 150.7 -51.1 1.000e-01 253 3.27e-02 14.2 0.0 0.0 58.6 27.2 2.000e-01 152 2.50e-02 11.2 0.0 0.0 55.0 33.8 3.000e-01 150 2.48e-02 11.2 0.0 0.0 55.5 33.3 4.000e-01 155 2.50e-02 11.4 0.0 0.0 55.8 32.8 5.000e-01 139 2.49e-02 10.4 0.0 0.0 57.1 32.5 6.000e-01 124 2.44e-02 9.6 0.0 0.0 57.0 33.4 7.000e-01 130 2.43e-02 10.0 0.0 0.0 56.8 33.2 8.000e-01 163 2.54e-02 11.9 0.0 0.0 55.7 32.3 9.000e-01 142 2.56e-02 10.3 0.0 0.0 57.1 32.5 1.000e+00 176 2.60e-02 12.5 0.0 0.0 55.3 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:03:47 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17123) exited] [Thread 0xffffe253f180 (LWP 17124) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17121) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17133)] [New Thread 0xffffe253f180 (LWP 17134)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17131 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 125ec00b-7b37-428d-8c90-6df4c9835543 Run started at : Mon Dec 9 16:04:00 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.4 149.4 -49.8 1.000e-01 253 3.24e-02 14.4 0.0 0.0 58.0 27.6 2.000e-01 152 2.47e-02 11.4 0.0 0.0 54.8 33.8 3.000e-01 150 2.48e-02 11.2 0.0 0.0 55.4 33.5 4.000e-01 155 2.47e-02 11.6 0.0 0.0 55.4 33.0 5.000e-01 139 2.44e-02 10.7 0.0 0.0 55.9 33.4 6.000e-01 124 2.44e-02 9.5 0.0 0.0 56.9 33.6 7.000e-01 130 2.50e-02 9.8 0.0 0.0 57.5 32.7 8.000e-01 163 2.60e-02 11.6 0.0 0.0 55.6 32.8 9.000e-01 142 2.52e-02 10.5 0.0 0.0 55.7 33.8 1.000e+00 176 2.57e-02 12.7 0.0 0.0 54.8 32.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:04:00 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17133) exited] [Thread 0xffffe253f180 (LWP 17134) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17131) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17143)] [New Thread 0xffffe253f180 (LWP 17144)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17141 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: a87f03be-f3ac-45d4-a329-514a0477ff36 Run started at : Mon Dec 9 16:04:14 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.0 0.0 0.4 148.1 -48.5 1.000e-01 253 3.29e-02 14.2 0.0 0.0 58.7 27.1 2.000e-01 152 2.49e-02 11.3 0.0 0.0 55.1 33.5 3.000e-01 150 2.47e-02 11.2 0.0 0.0 55.6 33.2 4.000e-01 155 2.48e-02 11.6 0.0 0.0 55.3 33.1 5.000e-01 139 2.50e-02 10.3 0.0 0.0 57.2 32.5 6.000e-01 124 2.47e-02 9.4 0.0 0.0 57.9 32.7 7.000e-01 130 2.47e-02 9.9 0.0 0.0 57.0 33.2 8.000e-01 163 2.57e-02 11.8 0.0 0.0 56.1 32.1 9.000e-01 142 2.58e-02 10.1 0.0 0.0 56.7 33.2 1.000e+00 176 2.59e-02 12.5 0.0 0.0 55.2 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:04:14 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17143) exited] [Thread 0xffffe253f180 (LWP 17144) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17141) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17153)] [New Thread 0xffffe253f180 (LWP 17154)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17151 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 33149c44-b9b6-46c6-880b-478dd4a7d942 Run started at : Mon Dec 9 16:04:28 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.0 0.0 0.4 148.3 -48.7 1.000e-01 253 3.27e-02 14.3 0.0 0.0 58.4 27.3 2.000e-01 152 2.48e-02 11.4 0.0 0.0 54.5 34.1 3.000e-01 150 2.48e-02 11.3 0.0 0.0 55.6 33.1 4.000e-01 155 2.53e-02 11.5 0.0 0.0 56.1 32.5 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.4 33.0 6.000e-01 124 2.46e-02 9.5 0.0 0.0 57.6 33.0 7.000e-01 130 2.48e-02 9.7 0.0 0.0 57.3 33.0 8.000e-01 163 2.55e-02 11.9 0.0 0.0 55.7 32.4 9.000e-01 142 2.54e-02 10.4 0.0 0.0 57.4 32.2 1.000e+00 176 2.61e-02 12.5 0.0 0.0 55.7 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:04:28 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17153) exited] [Thread 0xffffe253f180 (LWP 17154) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17151) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17163)] [New Thread 0xffffe253f180 (LWP 17164)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17161 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3723880, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3723880) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3723880, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3723880, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3723880) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3723880, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 4fcb7340-012a-4e48-8ecb-051e6cb398a2 Run started at : Mon Dec 9 16:04:42 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.0 0.0 0.4 150.4 -50.8 1.000e-01 253 3.29e-02 14.1 0.0 0.0 58.9 27.0 2.000e-01 152 2.49e-02 11.3 0.0 0.0 55.2 33.5 3.000e-01 150 2.48e-02 11.1 0.0 0.0 55.1 33.7 4.000e-01 155 2.50e-02 11.4 0.0 0.0 55.8 32.8 5.000e-01 139 2.47e-02 10.5 0.0 0.0 56.7 32.8 6.000e-01 124 2.43e-02 9.6 0.0 0.0 56.9 33.5 7.000e-01 130 2.48e-02 9.7 0.0 0.0 57.2 33.0 8.000e-01 163 2.56e-02 11.8 0.0 0.0 56.0 32.2 9.000e-01 142 2.53e-02 10.5 0.0 0.0 57.0 32.6 1.000e+00 176 2.57e-02 12.7 0.0 0.0 55.1 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:04:42 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17163) exited] [Thread 0xffffe253f180 (LWP 17164) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17161) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17173)] [New Thread 0xffffe253f180 (LWP 17174)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17171 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: da7eae6d-9f74-4794-859a-baaf8356ead0 Run started at : Mon Dec 9 16:04:56 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.12e-02 0.1 0.0 0.3 147.8 -48.3 1.000e-01 253 3.29e-02 14.2 0.0 0.0 58.8 27.0 2.000e-01 152 2.53e-02 11.2 0.0 0.0 55.3 33.6 3.000e-01 150 2.52e-02 11.1 0.0 0.0 56.3 32.6 4.000e-01 155 2.54e-02 11.3 0.0 0.0 56.3 32.4 5.000e-01 139 2.50e-02 10.3 0.0 0.0 57.1 32.5 6.000e-01 124 2.51e-02 9.3 0.0 0.0 57.9 32.7 7.000e-01 130 2.53e-02 9.6 0.0 0.0 57.4 32.9 8.000e-01 163 2.67e-02 11.3 0.0 0.0 56.5 32.2 9.000e-01 142 2.58e-02 10.3 0.0 0.0 57.8 31.8 1.000e+00 176 2.63e-02 12.4 0.0 0.0 55.8 31.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:04:56 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17173) exited] [Thread 0xffffe253f180 (LWP 17174) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17171) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17183)] [New Thread 0xffffe253f180 (LWP 17184)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17181 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: b7c7e387-3e42-4ab1-a1ec-a2b0c13ae09b Run started at : Mon Dec 9 16:05:10 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.3 148.2 -48.6 1.000e-01 253 3.28e-02 14.2 0.0 0.0 58.5 27.3 2.000e-01 152 2.46e-02 11.5 0.0 0.0 54.5 34.0 3.000e-01 150 2.46e-02 11.3 0.0 0.0 55.4 33.3 4.000e-01 155 2.51e-02 11.6 0.0 0.0 55.5 33.0 5.000e-01 139 2.45e-02 10.6 0.0 0.0 56.1 33.3 6.000e-01 124 2.42e-02 9.6 0.0 0.0 57.1 33.3 7.000e-01 130 2.47e-02 9.8 0.0 0.0 57.3 32.8 8.000e-01 163 2.55e-02 11.8 0.0 0.0 55.5 32.6 9.000e-01 142 2.48e-02 10.6 0.0 0.0 56.3 33.0 1.000e+00 176 2.58e-02 12.6 0.0 0.0 55.2 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:05:10 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17183) exited] [Thread 0xffffe253f180 (LWP 17184) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17181) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17193)] [New Thread 0xffffe253f180 (LWP 17194)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17191 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 5b864dfd-0ce2-4436-9c98-01b5e4782ed5 Run started at : Mon Dec 9 16:05:24 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.4 148.5 -49.0 1.000e-01 253 3.27e-02 14.2 0.0 0.0 58.5 27.3 2.000e-01 152 2.46e-02 11.4 0.0 0.0 54.7 33.9 3.000e-01 150 2.49e-02 11.1 0.0 0.0 55.7 33.2 4.000e-01 155 2.51e-02 11.5 0.0 0.0 55.5 32.9 5.000e-01 139 2.48e-02 10.5 0.0 0.0 56.5 33.0 6.000e-01 124 2.45e-02 9.4 0.0 0.0 56.8 33.8 7.000e-01 130 2.48e-02 9.8 0.0 0.0 56.6 33.6 8.000e-01 163 2.53e-02 11.9 0.0 0.0 55.2 32.9 9.000e-01 142 2.46e-02 10.8 0.0 0.0 56.4 32.8 1.000e+00 176 2.56e-02 12.7 0.0 0.0 54.5 32.8 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:05:24 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17193) exited] [Thread 0xffffe253f180 (LWP 17194) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17191) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17203)] [New Thread 0xffffe253f180 (LWP 17204)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17201 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 0009ee77-d4fd-4999-9ea9-04d5ac01a3b4 Run started at : Mon Dec 9 16:05:38 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.11e-02 0.0 0.0 0.4 148.7 -49.2 1.000e-01 253 3.31e-02 14.1 0.0 0.0 59.1 26.8 2.000e-01 152 2.49e-02 11.4 0.0 0.0 55.1 33.5 3.000e-01 150 2.50e-02 11.2 0.0 0.0 56.1 32.7 4.000e-01 155 2.52e-02 11.4 0.0 0.0 56.0 32.6 5.000e-01 139 2.49e-02 10.4 0.0 0.0 56.4 33.2 6.000e-01 124 2.47e-02 9.4 0.0 0.0 58.0 32.5 7.000e-01 130 2.45e-02 9.9 0.0 0.0 57.4 32.7 8.000e-01 163 2.59e-02 11.7 0.0 0.0 56.2 32.1 9.000e-01 142 2.54e-02 10.4 0.0 0.0 56.8 32.8 1.000e+00 176 2.64e-02 12.4 0.0 0.0 55.4 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:05:38 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17203) exited] [Thread 0xffffe253f180 (LWP 17204) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17201) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17213)] [New Thread 0xffffe253f180 (LWP 17214)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17211 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 5727c34d-c480-43df-9acf-3e43e3b6aae1 Run started at : Mon Dec 9 16:05:51 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.0 0.0 0.4 149.0 -49.4 1.000e-01 253 3.28e-02 14.2 0.0 0.0 58.5 27.3 2.000e-01 152 2.48e-02 11.4 0.0 0.0 55.0 33.6 3.000e-01 150 2.47e-02 11.3 0.0 0.0 55.6 33.1 4.000e-01 155 2.49e-02 11.7 0.0 0.0 55.9 32.4 5.000e-01 139 2.48e-02 10.4 0.0 0.0 56.4 33.2 6.000e-01 124 2.43e-02 9.6 0.0 0.0 56.6 33.8 7.000e-01 130 2.49e-02 9.8 0.0 0.0 57.0 33.2 8.000e-01 163 2.59e-02 11.7 0.0 0.0 56.4 31.9 9.000e-01 142 2.53e-02 10.4 0.0 0.0 56.7 32.9 1.000e+00 176 2.56e-02 12.8 0.0 0.0 54.5 32.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:05:52 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17213) exited] [Thread 0xffffe253f180 (LWP 17214) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17211) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17223)] [New Thread 0xffffe253f180 (LWP 17224)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17221 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: d9212400-8b79-4149-90fa-3dd511c3490f Run started at : Mon Dec 9 16:06:05 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.0 0.0 0.4 149.0 -49.4 1.000e-01 253 3.24e-02 14.4 0.0 0.0 58.3 27.3 2.000e-01 152 2.48e-02 11.5 0.0 0.0 54.9 33.6 3.000e-01 150 2.51e-02 11.1 0.0 0.0 56.0 32.9 4.000e-01 155 2.49e-02 11.6 0.0 0.0 55.4 33.0 5.000e-01 139 2.44e-02 10.4 0.0 0.0 56.4 33.2 6.000e-01 124 2.44e-02 9.5 0.0 0.0 57.3 33.2 7.000e-01 130 2.44e-02 9.9 0.0 0.0 57.0 33.1 8.000e-01 163 2.54e-02 11.9 0.0 0.0 55.9 32.2 9.000e-01 142 2.52e-02 10.5 0.0 0.0 56.4 33.1 1.000e+00 176 2.58e-02 12.6 0.0 0.0 55.3 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:06:06 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17223) exited] [Thread 0xffffe253f180 (LWP 17224) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17221) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17233)] [New Thread 0xffffe253f180 (LWP 17234)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17231 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 76368b7b-1d9d-432b-b91c-fbb88a645021 Run started at : Mon Dec 9 16:06:19 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.1 0.0 0.4 148.2 -48.7 1.000e-01 253 3.31e-02 14.0 0.0 0.0 58.5 27.4 2.000e-01 152 2.51e-02 11.3 0.0 0.0 55.5 33.2 3.000e-01 150 2.49e-02 11.2 0.0 0.0 56.0 32.8 4.000e-01 155 2.51e-02 11.5 0.0 0.0 55.9 32.6 5.000e-01 139 2.50e-02 10.3 0.0 0.0 56.4 33.3 6.000e-01 124 2.46e-02 9.5 0.0 0.0 57.9 32.6 7.000e-01 130 2.45e-02 9.9 0.0 0.0 57.3 32.8 8.000e-01 163 2.61e-02 11.5 0.0 0.0 56.2 32.2 9.000e-01 142 2.58e-02 10.3 0.0 0.0 57.5 32.3 1.000e+00 176 2.62e-02 12.4 0.0 0.0 55.6 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:06:19 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe253f180 (LWP 17234) exited] [Thread 0xffffe2d4f180 (LWP 17233) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17231) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17243)] [New Thread 0xffffe253f180 (LWP 17244)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17241 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38d40a0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38d40a0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38d40a0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38d40a0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38d40a0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38d40a0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: e4f3008b-5650-48b5-909a-29c2111064c3 Run started at : Mon Dec 9 16:06:33 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.0 0.0 0.4 148.5 -48.9 1.000e-01 253 3.28e-02 14.2 0.0 0.0 58.4 27.4 2.000e-01 152 2.50e-02 11.2 0.0 0.0 55.1 33.7 3.000e-01 150 2.51e-02 11.1 0.0 0.0 56.0 32.9 4.000e-01 155 2.50e-02 11.5 0.0 0.0 55.5 33.1 5.000e-01 139 2.43e-02 10.6 0.0 0.0 56.0 33.4 6.000e-01 124 2.46e-02 9.4 0.0 0.0 57.3 33.3 7.000e-01 130 2.48e-02 9.7 0.0 0.0 57.4 32.9 8.000e-01 163 2.58e-02 11.7 0.0 0.0 56.4 31.9 9.000e-01 142 2.52e-02 10.4 0.0 0.0 56.8 32.8 1.000e+00 176 2.61e-02 12.5 0.0 0.0 54.9 32.5 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:06:33 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17243) exited] [Thread 0xffffe253f180 (LWP 17244) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17241) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17253)] [New Thread 0xffffe253f180 (LWP 17254)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17251 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 0132270f-1f60-460b-82dc-847f81d59cd5 Run started at : Mon Dec 9 16:06:47 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.0 0.0 0.4 148.3 -48.7 1.000e-01 253 3.25e-02 14.2 0.0 0.0 58.5 27.3 2.000e-01 152 2.49e-02 11.4 0.0 0.0 55.0 33.6 3.000e-01 150 2.48e-02 11.2 0.0 0.0 55.5 33.3 4.000e-01 155 2.54e-02 11.4 0.0 0.0 56.1 32.5 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.8 32.7 6.000e-01 124 2.42e-02 9.6 0.0 0.0 57.7 32.7 7.000e-01 130 2.49e-02 9.7 0.0 0.0 57.6 32.7 8.000e-01 163 2.56e-02 11.8 0.0 0.0 56.3 31.9 9.000e-01 142 2.50e-02 10.6 0.0 0.0 56.8 32.6 1.000e+00 176 2.60e-02 12.5 0.0 0.0 55.8 31.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:06:47 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17253) exited] [Thread 0xffffe253f180 (LWP 17254) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17251) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17263)] [New Thread 0xffffe253f180 (LWP 17264)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17261 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe354c490, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe354c490) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe354c490, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: fda6a5d3-ad0c-448d-b213-67853d48f1e2 Run started at : Mon Dec 9 16:07:01 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.12e-02 -0.1 0.0 0.5 149.8 -50.2 1.000e-01 253 3.32e-02 14.0 0.0 0.0 58.4 27.6 2.000e-01 152 2.51e-02 11.3 0.0 0.0 55.2 33.5 3.000e-01 150 2.51e-02 11.1 0.0 0.0 55.7 33.2 4.000e-01 155 2.51e-02 11.5 0.0 0.0 54.9 33.5 5.000e-01 139 2.51e-02 10.3 0.0 0.0 56.7 33.0 6.000e-01 124 2.50e-02 9.3 0.0 0.0 57.7 33.0 7.000e-01 130 2.51e-02 9.8 0.0 0.0 57.8 32.5 8.000e-01 163 2.57e-02 11.7 0.0 0.0 55.6 32.7 9.000e-01 142 2.56e-02 10.4 0.0 0.0 56.4 33.2 1.000e+00 176 2.62e-02 12.4 0.0 0.0 55.2 32.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:07:01 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17263) exited] [Thread 0xffffe253f180 (LWP 17264) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17261) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17273)] [New Thread 0xffffe253f180 (LWP 17274)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17271 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 83c724aa-16ee-4c92-8535-f4c98a3b02d9 Run started at : Mon Dec 9 16:07:15 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.06e-02 0.1 0.0 0.4 148.6 -49.0 1.000e-01 253 3.29e-02 14.2 0.0 0.0 58.7 27.2 2.000e-01 152 2.49e-02 11.3 0.0 0.0 55.5 33.2 3.000e-01 150 2.48e-02 11.1 0.0 0.0 55.6 33.2 4.000e-01 155 2.52e-02 11.4 0.0 0.0 55.7 32.9 5.000e-01 139 2.50e-02 10.3 0.0 0.0 56.8 32.8 6.000e-01 124 2.45e-02 9.3 0.0 0.0 57.4 33.3 7.000e-01 130 2.50e-02 9.7 0.0 0.0 57.5 32.9 8.000e-01 163 2.59e-02 11.7 0.0 0.0 56.7 31.6 9.000e-01 142 2.53e-02 10.4 0.0 0.0 57.6 32.0 1.000e+00 176 2.60e-02 12.5 0.0 0.0 55.5 32.0 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:07:15 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17273) exited] [Thread 0xffffe253f180 (LWP 17274) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17271) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17283)] [New Thread 0xffffe253f180 (LWP 17284)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17281 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3723820, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3723820) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3723820, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3723820, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3723820) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3723820, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 5f9166bd-2b61-4fd1-b749-7806b029011f Run started at : Mon Dec 9 16:07:29 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.0 0.0 0.4 148.0 -48.5 1.000e-01 253 3.32e-02 14.0 0.0 0.0 58.8 27.2 2.000e-01 152 2.53e-02 11.1 0.0 0.0 55.5 33.4 3.000e-01 150 2.49e-02 11.2 0.0 0.0 55.5 33.3 4.000e-01 155 2.53e-02 11.6 0.0 0.0 55.3 33.1 5.000e-01 139 2.48e-02 10.5 0.0 0.0 56.4 33.2 6.000e-01 124 2.47e-02 9.4 0.0 0.0 57.6 33.0 7.000e-01 130 2.50e-02 9.7 0.0 0.0 57.2 33.1 8.000e-01 163 2.58e-02 11.6 0.0 0.0 55.6 32.9 9.000e-01 142 2.55e-02 10.3 0.0 0.0 56.9 32.8 1.000e+00 176 2.61e-02 12.4 0.0 0.0 55.7 31.9 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:07:29 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17283) exited] [Thread 0xffffe253f180 (LWP 17284) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17281) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17293)] [New Thread 0xffffe253f180 (LWP 17294)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17291 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: eb5897ee-b166-4eba-a28d-1346b6f7b530 Run started at : Mon Dec 9 16:07:43 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.1 0.0 0.4 149.2 -49.7 1.000e-01 253 3.26e-02 14.3 0.0 0.0 58.3 27.4 2.000e-01 152 2.48e-02 11.4 0.0 0.0 55.1 33.5 3.000e-01 150 2.48e-02 11.3 0.0 0.0 55.3 33.4 4.000e-01 155 2.49e-02 11.5 0.0 0.0 55.3 33.2 5.000e-01 139 2.48e-02 10.4 0.0 0.0 56.8 32.8 6.000e-01 124 2.45e-02 9.5 0.0 0.0 57.1 33.4 7.000e-01 130 2.46e-02 9.9 0.0 0.0 57.1 33.1 8.000e-01 163 2.54e-02 11.8 0.0 0.0 55.3 32.9 9.000e-01 142 2.49e-02 10.6 0.0 0.0 57.0 32.4 1.000e+00 176 2.57e-02 12.6 0.0 0.0 55.3 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:07:43 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17293) exited] [Thread 0xffffe253f180 (LWP 17294) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17291) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17303)] [New Thread 0xffffe253f180 (LWP 17304)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17301 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: dfb2e8f6-2353-4a05-963d-3fe094b3f9fc Run started at : Mon Dec 9 16:07:57 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.4 148.6 -49.1 1.000e-01 253 3.23e-02 14.4 0.0 0.0 58.4 27.2 2.000e-01 152 2.43e-02 11.6 0.0 0.0 54.7 33.7 3.000e-01 150 2.49e-02 11.2 0.0 0.0 55.6 33.2 4.000e-01 155 2.49e-02 11.6 0.0 0.0 55.3 33.1 5.000e-01 139 2.43e-02 10.6 0.0 0.0 56.1 33.3 6.000e-01 124 2.39e-02 9.7 0.0 0.0 56.8 33.5 7.000e-01 130 2.43e-02 10.0 0.0 0.0 56.5 33.5 8.000e-01 163 2.51e-02 12.0 0.0 0.0 55.7 32.4 9.000e-01 142 2.47e-02 10.7 0.0 0.0 56.4 32.9 1.000e+00 176 2.56e-02 12.7 0.0 0.0 55.0 32.3 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:07:57 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17303) exited] [Thread 0xffffe253f180 (LWP 17304) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17301) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17313)] [New Thread 0xffffe253f180 (LWP 17314)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17311 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3cbe650, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3cbe650) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3cbe650, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3cbe650, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3cbe650) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3cbe650, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: b1d7e7da-d1b4-4fe9-8b7c-76d7b0dd7ec2 Run started at : Mon Dec 9 16:08:11 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.2 0.0 0.4 149.6 -50.1 1.000e-01 253 3.29e-02 14.3 0.0 0.0 58.3 27.5 2.000e-01 152 2.51e-02 11.3 0.0 0.0 55.0 33.6 3.000e-01 150 2.48e-02 11.3 0.0 0.0 55.4 33.3 4.000e-01 155 2.50e-02 11.5 0.0 0.0 55.2 33.3 5.000e-01 139 2.46e-02 10.5 0.0 0.0 56.0 33.5 6.000e-01 124 2.45e-02 9.5 0.0 0.0 56.7 33.9 7.000e-01 130 2.45e-02 9.9 0.0 0.0 57.1 33.0 8.000e-01 163 2.56e-02 11.8 0.0 0.0 55.6 32.6 9.000e-01 142 2.49e-02 10.7 0.0 0.0 55.9 33.4 1.000e+00 176 2.58e-02 12.6 0.0 0.0 55.1 32.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:08:11 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17313) exited] [Thread 0xffffe253f180 (LWP 17314) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17311) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17323)] [New Thread 0xffffe253f180 (LWP 17324)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17321 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 8b50a96f-e94d-4194-85aa-a7765e452afb Run started at : Mon Dec 9 16:08:24 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 -0.0 0.0 0.4 149.0 -49.4 1.000e-01 253 3.25e-02 14.3 0.0 0.0 58.0 27.7 2.000e-01 152 2.51e-02 11.3 0.0 0.0 55.0 33.7 3.000e-01 150 2.50e-02 11.1 0.0 0.0 55.1 33.8 4.000e-01 155 2.56e-02 11.2 0.0 0.0 56.2 32.6 5.000e-01 139 2.47e-02 10.5 0.0 0.0 56.5 33.0 6.000e-01 124 2.49e-02 9.4 0.0 0.0 57.2 33.4 7.000e-01 130 2.48e-02 9.8 0.0 0.0 56.5 33.7 8.000e-01 163 2.57e-02 11.7 0.0 0.0 55.5 32.8 9.000e-01 142 2.52e-02 10.6 0.0 0.0 56.5 32.9 1.000e+00 176 2.57e-02 12.6 0.0 0.0 55.2 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:08:25 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17323) exited] [Thread 0xffffe253f180 (LWP 17324) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17321) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17333)] [New Thread 0xffffe253f180 (LWP 17334)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17331 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: f20039f9-f075-45bc-a73e-0f95814b5753 Run started at : Mon Dec 9 16:08:38 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.08e-02 0.0 0.0 0.4 148.4 -48.8 1.000e-01 253 3.26e-02 14.3 0.0 0.0 58.3 27.4 2.000e-01 152 2.46e-02 11.5 0.0 0.0 55.2 33.3 3.000e-01 150 2.50e-02 11.1 0.0 0.0 55.4 33.6 4.000e-01 155 2.47e-02 11.7 0.0 0.0 55.8 32.5 5.000e-01 139 2.43e-02 10.7 0.0 0.0 56.1 33.2 6.000e-01 124 2.45e-02 9.4 0.0 0.0 57.3 33.3 7.000e-01 130 2.48e-02 9.8 0.0 0.0 56.8 33.4 8.000e-01 163 2.54e-02 11.9 0.0 0.0 55.9 32.3 9.000e-01 142 2.51e-02 10.5 0.0 0.0 57.0 32.5 1.000e+00 176 2.58e-02 12.6 0.0 0.0 55.3 32.1 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:08:39 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17333) exited] [Thread 0xffffe253f180 (LWP 17334) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17331) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17343)] [New Thread 0xffffe253f180 (LWP 17344)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17341 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe37237f0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe37237f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe37237f0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 36948098-bc04-4c2e-8741-69bbf493d8c8 Run started at : Mon Dec 9 16:08:52 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.10e-02 0.1 0.0 0.3 148.5 -48.9 1.000e-01 253 3.27e-02 14.3 0.0 0.0 58.6 27.1 2.000e-01 152 2.49e-02 11.4 0.0 0.0 55.0 33.5 3.000e-01 150 2.47e-02 11.3 0.0 0.0 55.6 33.1 4.000e-01 155 2.55e-02 11.3 0.0 0.0 56.0 32.7 5.000e-01 139 2.51e-02 10.3 0.0 0.0 56.8 32.9 6.000e-01 124 2.45e-02 9.5 0.0 0.0 57.4 33.1 7.000e-01 130 2.48e-02 9.7 0.0 0.0 57.3 33.0 8.000e-01 163 2.56e-02 11.8 0.0 0.0 55.7 32.5 9.000e-01 142 2.53e-02 10.4 0.0 0.0 56.6 33.0 1.000e+00 176 2.62e-02 12.4 0.0 0.0 55.9 31.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:08:53 2024 Run time : 1 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17343) exited] [Thread 0xffffe253f180 (LWP 17344) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17341) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17353)] [New Thread 0xffffe253f180 (LWP 17354)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17351 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe368b760, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe368b760) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe368b760, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 535ed0b2-e97a-4729-87ee-ded6022e109d Run started at : Mon Dec 9 16:09:06 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.09e-02 0.0 0.0 0.4 149.4 -49.8 1.000e-01 253 3.32e-02 14.1 0.0 0.0 58.5 27.4 2.000e-01 152 2.52e-02 11.2 0.0 0.0 55.1 33.7 3.000e-01 150 2.49e-02 11.2 0.0 0.0 56.0 32.8 4.000e-01 155 2.53e-02 11.3 0.0 0.0 55.7 33.0 5.000e-01 139 2.52e-02 10.3 0.0 0.0 57.0 32.7 6.000e-01 124 2.48e-02 9.3 0.0 0.0 57.5 33.2 7.000e-01 130 2.50e-02 9.8 0.0 0.0 57.3 32.9 8.000e-01 163 2.59e-02 11.6 0.0 0.0 56.4 32.0 9.000e-01 142 2.58e-02 10.2 0.0 0.0 57.3 32.5 1.000e+00 176 2.61e-02 12.5 0.0 0.0 55.0 32.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:09:06 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17353) exited] [Thread 0xffffe253f180 (LWP 17354) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17351) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17363)] [New Thread 0xffffe253f180 (LWP 17364)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17361 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xfffff751b3a0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xfffff751b3a0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xfffff751b3a0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xfffff751b3a0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xfffff751b3a0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xfffff751b3a0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 221e2ffb-2a06-4b37-bd64-64d8a4ae95b3 Run started at : Mon Dec 9 16:09:20 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.05e-02 0.1 0.0 0.4 149.4 -49.8 1.000e-01 253 3.24e-02 14.4 0.0 0.0 58.5 27.1 2.000e-01 152 2.47e-02 11.5 0.0 0.0 54.6 33.9 3.000e-01 150 2.46e-02 11.3 0.0 0.0 55.1 33.6 4.000e-01 155 2.48e-02 11.7 0.0 0.0 55.2 33.1 5.000e-01 139 2.44e-02 10.6 0.0 0.0 56.3 33.1 6.000e-01 124 2.45e-02 9.6 0.0 0.0 56.9 33.6 7.000e-01 130 2.44e-02 9.9 0.0 0.0 57.1 33.0 8.000e-01 163 2.54e-02 11.9 0.0 0.0 56.2 32.0 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.7 32.7 1.000e+00 176 2.55e-02 12.8 0.0 0.0 54.5 32.7 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:09:20 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe253f180 (LWP 17364) exited] [Thread 0xffffe2d4f180 (LWP 17363) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17361) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17373)] [New Thread 0xffffe253f180 (LWP 17374)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17371 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe38bbbb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe38bbbb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe38bbbb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 36a666a0-9fb0-49da-8705-e5678a0b83c9 Run started at : Mon Dec 9 16:09:34 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.1 0.0 0.4 149.1 -49.6 1.000e-01 253 3.20e-02 14.6 0.0 0.0 58.1 27.2 2.000e-01 152 2.45e-02 11.6 0.0 0.0 54.8 33.7 3.000e-01 150 2.48e-02 11.2 0.0 0.0 55.1 33.7 4.000e-01 155 2.48e-02 11.6 0.0 0.0 55.7 32.6 5.000e-01 139 2.45e-02 10.5 0.0 0.0 56.3 33.2 6.000e-01 124 2.43e-02 9.5 0.0 0.0 56.8 33.7 7.000e-01 130 2.45e-02 9.9 0.0 0.0 57.0 33.0 8.000e-01 163 2.54e-02 11.9 0.0 0.0 56.0 32.1 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.3 33.1 1.000e+00 176 2.57e-02 12.7 0.0 0.0 54.8 32.6 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:09:34 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17373) exited] [Thread 0xffffe253f180 (LWP 17374) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17371) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17383)] [New Thread 0xffffe253f180 (LWP 17384)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17381 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xfffff751b3a0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xfffff751b3a0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xfffff751b3a0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xfffff751b3a0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xfffff751b3a0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xfffff751b3a0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: eb701ec6-59bf-4959-900b-878f127e794a Run started at : Mon Dec 9 16:09:48 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.07e-02 0.0 0.0 0.4 149.1 -49.5 1.000e-01 253 3.24e-02 14.3 0.0 0.0 58.3 27.4 2.000e-01 152 2.50e-02 11.2 0.0 0.0 55.1 33.6 3.000e-01 150 2.48e-02 11.3 0.0 0.0 55.8 32.9 4.000e-01 155 2.47e-02 11.6 0.0 0.0 55.4 33.0 5.000e-01 139 2.47e-02 10.5 0.0 0.0 56.5 33.0 6.000e-01 124 2.43e-02 9.5 0.0 0.0 56.9 33.6 7.000e-01 130 2.44e-02 9.9 0.0 0.0 57.3 32.8 8.000e-01 163 2.52e-02 11.9 0.0 0.0 56.0 32.1 9.000e-01 142 2.49e-02 10.6 0.0 0.0 56.5 32.9 1.000e+00 176 2.59e-02 12.5 0.0 0.0 55.2 32.2 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:09:48 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17383) exited] [Thread 0xffffe253f180 (LWP 17384) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17381) exited normally] + for i in {1..100} + PYTHONPATH=../../../../tools/pylib/: + gdb --batch --command=test.gdb python3 Function "MPI_Finalize" not defined. Breakpoint 1 (MPI_Finalize) pending. Breakpoint 2 (MPI_Comm_rank) pending. Function "MPI_Comm_rank" not defined. Argument list to give program being debugged when it is started is "". Note, however: in batch mode, arguments will be ignored! [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib64/libthread_db.so.1". [New Thread 0xffffe2d4f180 (LWP 17393)] [New Thread 0xffffe253f180 (LWP 17394)] Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdba84 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:160 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () BOUT++ version 5.2.0 Revision: Unknown Code compiled on Dec 9 2024 at 00:00:00 B.Dudson (University of York), M.Umansky (LLNL) 2007 Based on BOUT by Xueqiao Xu, 1999 Processor number: 0 of 1 pid: 17391 Compile-time options: Runtime error checking enabled, level 2 Parallel NetCDF support disabled Metrics mode is 2D FFT support enabled Natural language support enabled LAPACK support enabled NetCDF support enabled (NetCDF4) ADIOS2 support disabled PETSc support enabled Pretty function name support enabled PVODE support enabled Score-P support disabled SLEPc support disabled SUNDIALS support enabled Backtrace in exceptions enabled Colour in logs enabled OpenMP parallelisation disabled, using 1 threads Extra debug output disabled Floating-point exceptions disabled Signal handling support enabled Field name tracking enabled Message stack enabled Compiled with flags : "-Wall -Wextra -Wnull-dereference -Wno-cast-function-type -DCHECK=2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer-O2 -g -DNDEBUG" Command line options for this run : boutpp -d mini Reading options file mini/BOUT.inp Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Option settingsfile = BOUT.settings (default) Writing options to file mini/BOUT.settings Option mesh:type = bout (default) Getting grid data from options Option mesh:calcParallelSlices_on_communicate = 1 (default) Option mesh:maxregionblocksize = 64 (default) Option mesh:staggergrids = 0 (default) Option mesh:include_corner_cells = 1 (default) Option mesh:ddz:fft_filter = 0 (default) Option mesh:symmetricGlobalX = 1 (default) Option optionfile = BOUT.inp (default) WARNING: The default of this option has changed in release 4.1. If you want the old setting, you have to specify mesh:symmetricGlobalY=false in BOUT.inp Option mesh:symmetricGlobalY = 1 (default) Loading mesh Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff713203c [PAC] in BoutMesh::load (this=0xaaaaab1d33d0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/mesh/impls/bout/boutmesh.cxx:453 #2 0x0000fffff6fdbca8 [PAC] in BoutInitialise (argc=@0xffffffffd940: 3, argv=@0xffffffffd918: 0xaaaaaabc6de0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:209 #3 0x0000fffff73fc8a8 [PAC] in __pyx_pf_9libboutpp_init (__pyx_self=, __pyx_v_args=0xfffff76dd000) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55726 #4 __pyx_pw_9libboutpp_1init (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55289 #5 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #10 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #11 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #12 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #13 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #14 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #15 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #16 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #17 0x0000aaaaaaab00f0 [PAC] in _start () Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option mesh:n = 5 (mini/BOUT.inp) Option MXG = 1 (mini/BOUT.inp) Option mesh:nx = 7 (mini/BOUT.inp) Option mesh:ny = 1 (mini/BOUT.inp) Option mesh:nz = 1 (mini/BOUT.inp) Read nz from input grid file Grid size: 7 x 1 x 1 Variable 'MXG' not in mesh options. Setting to 0 Option MXG = 1 (mini/BOUT.inp) Variable 'MYG' not in mesh options. Setting to 0 Option MYG = 0 (mini/BOUT.inp) Guard cells (x,y,z): 1, 0, 0 Variable 'ixseps1' not in mesh options. Setting to 7 Variable 'ixseps2' not in mesh options. Setting to 7 Variable 'jyseps1_1' not in mesh options. Setting to -1 Variable 'jyseps1_2' not in mesh options. Setting to 0 Variable 'jyseps2_1' not in mesh options. Setting to 0 Variable 'jyseps2_2' not in mesh options. Setting to 0 Variable 'ny_inner' not in mesh options. Setting to 0 Finding value for NXPE (ideal = 2.236068) Candidate value: 1 -> Good value Domain split (NXPE=1, NYPE=1) into domains (localNx=5, localNy=1) Option IncIntShear = 0 (default) Option periodicX = 0 (default) Option async_send = 0 (default) Option ZMIN = 0 (default) Option ZMAX = 1 (default) EQUILIBRIUM IS SINGLE NULL (SND) Connection between top of Y processor 0 and bottom of 0 in range 0 <= x < 7 => This processor sending in up => This processor sending in down WARNING adding connection: poloidal index -1 out of range MYPE_IN_CORE = true DXS = 7, DIN = 0. DOUT = -1 UXS = 7, UIN = 0. UOUT = -1 XIN = -1, XOUT = -1 Twist-shift: DI UI Option twistshift = 0 (default) Variable 'ShiftAngle' not in mesh options. Setting to empty vector Possible boundary regions are: core, sol, Boundary regions in this processor: core, sol, Constructing default regions Boundary region inner X Boundary region outer X Option mesh:extrapolate_x = 0 (default) Option mesh:extrapolate_y = 0 (default) Option mesh:dx = 1/n/2/pi (mini/BOUT.inp) Option mesh:n = 5 (mini/BOUT.inp) Variable 'dy' not in mesh options. Setting to 1.000000e+00 Option ZMIN = 0 (default) Option ZMAX = 1 (default) Variable 'dz' not in mesh options. Setting to 6.283185e+00 Option mesh:paralleltransform:type = identity (default) Variable 'g11' not in mesh options. Setting to 1.000000e+00 Variable 'g22' not in mesh options. Setting to 1.000000e+00 Variable 'g33' not in mesh options. Setting to 1.000000e+00 Variable 'g12' not in mesh options. Setting to 0.000000e+00 Variable 'g13' not in mesh options. Setting to 0.000000e+00 Variable 'g23' not in mesh options. Setting to 0.000000e+00 Local maximum error in diagonal inversion is 0.000000e+00 Local maximum error in off-diagonal inversion is 0.000000e+00 Variable 'J' not in mesh options. Setting to 0.000000e+00 WARNING: Jacobian 'J' not found. Calculating from metric tensor Variable 'Bxy' not in mesh options. Setting to 0.000000e+00 WARNING: Magnitude of B field 'Bxy' not found. Calculating from metric tensor Variable 'ShiftTorsion' not in mesh options. Setting to 0.000000e+00 WARNING: No Torsion specified for zShift. Derivatives may not be correct Calculating differential geometry terms Communicating connection terms Option non_uniform = 1 (default) Variable 'd2x' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2x' not found. Calculating from dx Variable 'd2y' not in mesh options. Setting to 0.000000e+00 WARNING: differencing quantity 'd2y' not found. Calculating from dy done Option output:enabled = 1 (default) Option restart_files:enabled = 1 (default) Option datadir = mini (Command line) Option append = 0 (default) Option output:type = netcdf (default) Option output:path = mini (user_default) Option output:prefix = BOUT.dmp (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72355f8 [PAC] in bout::OptionsIOFactory::createOutput (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_io.cxx:41 #11 0x0000fffff71bd2e0 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:73 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3d43bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3d43bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3d43bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option output:append = false (user_default) Option datadir = mini (Command line) Option restart_files:type = netcdf (default) Option restart_files:path = mini (user_default) Option restart_files:prefix = BOUT.restart (user_default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff723cbc8 [PAC] in bout::OptionsNetCDF::OptionsNetCDF (this=, options=..., this=, options=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/options/options_netcdf.cxx:650 #3 0x0000fffff723cd8c [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #4 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}::operator()(Options&) const (__closure=, args#0=...) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #5 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #6 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}&, Options&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #7 std::_Function_handler > (Options&), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options&)#1}>::_M_invoke(std::_Any_data const&, Options&) (__functor=..., __args#0=...) at /usr/include/c++/14/bits/std_function.h:291 #8 0x0000fffff723a4d4 [PAC] in std::function >(Options&)>::operator() (this=0xaaaaaabc6220, __args#0=...) at /usr/include/c++/14/bits/std_function.h:591 #9 Factory::create (this=0xfffff73823c8 ::getInstance()::instance>, name="netcdf") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #10 0x0000fffff72352e0 [PAC] in bout::OptionsIOFactory::createRestart (this=0xfffff73823c8 ::getInstance()::instance>, optionsptr=) at /usr/include/c++/14/bits/allocator.h:182 #11 0x0000fffff71bd3c4 [PAC] in PhysicsModel::PhysicsModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/physics/physicsmodel.cxx:77 #12 0x0000fffff73ee5c0 [PAC] in PythonModel::PythonModel (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:137 #13 __pyx_pf_9libboutpp_16PhysicsModelBase___init__ (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52098 #14 __pyx_pw_9libboutpp_16PhysicsModelBase_1__init__ (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52037 #15 0x0000fffff7bf8eb8 [PAC] in wrap_init () from /lib64/libpython3.13.so.1.0 #16 0x0000fffff7438064 [PAC] in __Pyx_PyObject_Call (func=0xffffe3d43bb0, arg=0xfffff7f0f468 <_PyRuntime+88248>, kw=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84626 #17 __Pyx_PyObject_FastCallDict (kwargs=0x0, args=, _nargs=, func=0xffffe3d43bb0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:85015 #18 __Pyx_PyObject_FastCallDict(_object*, _object**, unsigned long, _object*) [clone .constprop.0] (func=0xffffe3d43bb0, args=, _nargs=, kwargs=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:84964 #19 0x0000fffff73f04c8 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel___init__ (__pyx_self=, __pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53560 #20 __pyx_pw_9libboutpp_12PhysicsModel_1__init__ (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53496 #21 0x0000fffff7b223d0 [PAC] in slot_tp_init () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7acc914 [PAC] in _PyObject_MakeTpCall () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #32 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #33 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #34 0x0000aaaaaaab00f0 [PAC] in _start () Option restart_files:append = false (user_default) Option solver:type = cvode (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff71f5164 [PAC] in Solver::Solver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:73 #3 0x0000fffff71ce2f0 [PAC] in CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #4 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #5 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #6 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #7 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #8 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #9 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #10 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #11 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #12 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #13 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #14 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #15 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #16 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #17 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #18 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #21 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #29 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #30 0x0000aaaaaaab00f0 [PAC] in _start () Option solver:monitor_timestep = 0 (default) Option solver:save_repeat_run_id = 0 (default) Option solver:is_nonsplit_model_diffusive = 1 (default) Option solver:mms = 0 (default) Option solver:mms_initialise = 0 (default) Option nout = 10 (mini/BOUT.inp) Option solver:nout = 10 (default) Option timestep = 0.1 (mini/BOUT.inp) Option solver:output_step = 0.1 (default) Option solver:diagnose = 0 (default) Option solver:adams_moulton = 0 (default) Option solver:func_iter = 0 (default) Option solver:cvode_max_order = -1 (default) Option solver:cvode_stability_limit_detection = 0 (default) Option solver:atol = 1e-10 (mini/BOUT.inp) Option solver:rtol = 1e-08 (mini/BOUT.inp) Option solver:use_vector_abstol = 0 (default) Option solver:mxstep = 500 (default) Option solver:max_timestep = 0 (default) Option solver:min_timestep = 0 (default) Option solver:start_timestep = 0 (default) Option solver:mxorder = -1 (default) Option solver:max_nonlinear_iterations = 3 (default) Option solver:apply_positivity_constraints = 0 (default) Option solver:maxl = 5 (default) Option solver:use_precon = 0 (default) Option solver:rightprec = 0 (default) Option solver:use_jacobian = 0 (default) Option solver:cvode_nonlinear_convergence_coef = 0.1 (default) Option solver:cvode_linear_convergence_coef = 0.05 (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a72c [PAC] in SUNLogger_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b004 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a7e0 [PAC] in SUNLogger_SetErrorFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b014 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a8f0 [PAC] in SUNLogger_SetWarningFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b070 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495aa60 [PAC] in SUNLogger_SetDebugFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b084 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495a9dc [PAC] in SUNLogger_SetInfoFilename () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff495b098 [PAC] in SUNLogger_CreateFromEnv () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff4956540 [PAC] in SUNContext_Create () from /usr/lib64/mpich/lib/libsundials_core.so.7 #4 0x0000fffff71ce92c [PAC] in sundials::Context::Context (this=0xaaaaab06f958, comm=-2080374784) at /usr/include/c++/14/bits/unique_ptr.h:193 #5 createSUNContext (comm=, comm=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/sundials_backports.hxx:60 #6 CvodeSolver::CvodeSolver (this=, opts=, this=, opts=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:134 #7 0x0000fffff71dedec [PAC] in std::make_unique () at /usr/include/c++/14/bits/unique_ptr.h:1077 #8 Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}::operator()(Options*&&) const (__closure=, args#0=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:233 #9 std::__invoke_impl >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(std::__invoke_other, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__f=...) at /usr/include/c++/14/bits/invoke.h:61 #10 std::__invoke_r >, Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*>(Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}&, Options*&&) (__fn=...) at /usr/include/c++/14/bits/invoke.h:116 #11 std::_Function_handler > (Options*), Factory::RegisterInFactory::RegisterInFactory(std::__cxx11::basic_string, std::allocator > const&)::{lambda(Options*&&)#1}>::_M_invoke(std::_Any_data const&, Options*&&) (__functor=..., __args#0=) at /usr/include/c++/14/bits/std_function.h:291 #12 0x0000fffff7275e4c [PAC] in std::function >(Options*)>::operator() (this=0xaaaaaabc69c0, __args#0=0xaaaaab143bb0) at /usr/include/c++/14/bits/std_function.h:591 #13 Factory::create(std::__cxx11::basic_string, std::allocator > const&, Options*&&) const [clone .isra.0] (this=0xfffff7381c28 ::getInstance()::instance>, name="cvode") at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/include/bout/generic_factory.hxx:166 #14 0x0000fffff72010cc [PAC] in Factory::create (this=, options=) at /usr/include/c++/14/bits/allocator.h:182 #15 Solver::create (opts=opts@entry=0x0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/solver.cxx:1006 #16 0x0000fffff73f1e38 [PAC] in PythonModel::pyinit (this=0xaaaaab1e97f0) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:139 #17 __pyx_pf_9libboutpp_16PhysicsModelBase_2solve (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52243 #18 __pyx_pw_9libboutpp_16PhysicsModelBase_3solve (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:52197 #19 0x0000fffff73f0b54 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_2solve (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:54336 #20 __pyx_pw_9libboutpp_12PhysicsModel_3solve (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53692 #21 0x0000fffff7ad1bc4 [PAC] in PyObject_Vectorcall () from /lib64/libpython3.13.so.1.0 #22 0x0000fffff7ae6b68 [PAC] in _PyEval_EvalFrameDefault () from /lib64/libpython3.13.so.1.0 #23 0x0000fffff7bd6438 [PAC] in PyEval_EvalCode () from /lib64/libpython3.13.so.1.0 #24 0x0000fffff7c08974 [PAC] in run_eval_code_obj () from /lib64/libpython3.13.so.1.0 #25 0x0000fffff7bff8a8 [PAC] in run_mod () from /lib64/libpython3.13.so.1.0 #26 0x0000fffff7c3b37c [PAC] in pyrun_file () from /lib64/libpython3.13.so.1.0 #27 0x0000fffff7c39d54 [PAC] in _PyRun_SimpleFileObject () from /lib64/libpython3.13.so.1.0 #28 0x0000fffff7c39acc [PAC] in _PyRun_AnyFileObject () from /lib64/libpython3.13.so.1.0 #29 0x0000fffff7c2eb20 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #30 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #31 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #32 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #33 0x0000aaaaaaab00f0 [PAC] in _start () Setting up output (experimental output) file Option restart = 0 (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Setting boundary for variable dens core region: Option all:bndry_all = dirichlet (default) sol region: Option all:bndry_all = dirichlet (default) Option input:transform_from_field_aligned = true (default) Option input:max_recursion_depth = 0 (default) Option dens:function = sin(2*pi*x) (mini/BOUT.inp) Option all:scale = 1 (default) Option all:evolve_bndry = 0 (default) Option dens:evolve_bndry = 0 (default) Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Variable 'grid_id' not in mesh options. Setting to Variable 'hypnotoad_version' not in mesh options. Setting to Variable 'hypnotoad_git_hash' not in mesh options. Setting to Variable 'hypnotoad_git_diff' not in mesh options. Setting to Variable 'hypnotoad_geqdsk_filename' not in mesh options. Setting to Option wall_limit = -1 (default) Option stopCheck = 0 (default) Option datadir = mini (Command line) Option stopCheckName = BOUT.stop (default) Solver running for 10 outputs with output timestep of 1.000000e-01 Initialising solver Initialising SUNDIALS' CVODE solver 3d fields = 1, 2d fields = 0 neq=5, local_N=5 Using BDF method Using Newton iteration No preconditioning Using difference quotient approximation for Jacobian Running simulation Run ID: 1cbff916-8be0-4855-b9e6-3544bb424090 Run started at : Mon Dec 9 16:10:02 2024 Option restart = false (default) Option append = false (default) Option dump_on_restart = 1 (default) Option input:validate = 0 (default) Option input:error_on_unused_options = 1 (default) Option datadir = mini (Command line) Option optionfile = BOUT.inp (default) Sim Time | RHS evals | Wall Time | Calc Inv Comm I/O SOLVER 0.000e+00 1 2.13e-02 0.0 0.0 0.4 148.4 -48.9 1.000e-01 253 3.30e-02 14.2 0.0 0.0 58.7 27.2 2.000e-01 152 2.52e-02 11.2 0.0 0.0 55.5 33.3 3.000e-01 150 2.53e-02 11.0 0.0 0.0 56.2 32.8 4.000e-01 155 2.52e-02 11.4 0.0 0.0 56.2 32.4 5.000e-01 139 2.50e-02 10.3 0.0 0.0 57.3 32.4 6.000e-01 124 2.51e-02 9.2 0.0 0.0 57.6 33.2 7.000e-01 130 2.51e-02 9.6 0.0 0.0 57.6 32.7 8.000e-01 163 2.59e-02 11.7 0.0 0.0 56.3 32.1 9.000e-01 142 2.54e-02 10.4 0.0 0.0 57.3 32.3 1.000e+00 176 2.63e-02 12.4 0.0 0.0 56.3 31.4 - Step 10 of 10. Elapsed 0:00:00.3 ETA 0:00:-0.1 Run finished at : Mon Dec 9 16:10:02 2024 Run time : 0 s Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff495af28 [PAC] in SUNLogger_Destroy () from /usr/lib64/mpich/lib/libsundials_core.so.7 #2 0x0000fffff4956920 [PAC] in SUNContext_Free () from /usr/lib64/mpich/lib/libsundials_core.so.7 #3 0x0000fffff71ce234 [PAC] in sundials::Context::~Context (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:464 #4 CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #5 0x0000fffff71ce298 [PAC] in CvodeSolver::~CvodeSolver (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/solver/impls/cvode/cvode.cxx:165 #6 0x0000fffff73f33bc [PAC] in std::default_delete::operator() (this=, __ptr=) at /usr/include/c++/14/bits/unique_ptr.h:93 #7 std::unique_ptr >::~unique_ptr (this=, this=) at /usr/include/c++/14/bits/unique_ptr.h:399 #8 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #9 PythonModel::~PythonModel (this=, this=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/helper.h:123 #10 0x0000fffff73ee3d4 [PAC] in __pyx_pf_9libboutpp_16PhysicsModelBase_12_boutpp_dealloc (__pyx_v_self=0xfffff76cb570) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53135 #11 __pyx_pw_9libboutpp_16PhysicsModelBase_13_boutpp_dealloc (__pyx_v_self=0xfffff76cb570, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:53096 #12 0x0000fffff73efd28 [PAC] in __pyx_pf_9libboutpp_12PhysicsModel_10_boutpp_dealloc (__pyx_self=, __pyx_v_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55123 #13 __pyx_pw_9libboutpp_12PhysicsModel_11_boutpp_dealloc (__pyx_self=, __pyx_args=, __pyx_nargs=, __pyx_kwds=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55059 #14 0x0000fffff73f3e5c [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56134 #15 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #16 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #17 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #18 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #19 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #20 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #21 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #22 0x0000aaaaaaab00f0 [PAC] in _start () Option datadir = mini (Command line) Option settingsfile = BOUT.settings (default) Thread 1 "python3" hit Breakpoint 2.1, 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #0 0x0000fffff41af720 in PMPI_Comm_rank () from /usr/lib64/mpich/lib/libmpi.so.12 #1 0x0000fffff72080b4 [PAC] in BoutComm::rank () at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/sys/boutcomm.cxx:51 #2 0x0000fffff6fdc2ac [PAC] in BoutFinalise (write_settings=write_settings@entry=true) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/src/bout++.cxx:747 #3 0x0000fffff73f46a8 [PAC] in __pyx_pf_9libboutpp_2finalise (__pyx_self=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:56321 #4 __pyx_pw_9libboutpp_3finalise (__pyx_self=, unused=) at /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich/tools/pylib/_boutpp_build/libboutpp.cpp:55887 #5 0x0000fffff7c36470 [PAC] in atexit_callfuncs () from /lib64/libpython3.13.so.1.0 #6 0x0000fffff7c031f8 [PAC] in _Py_Finalize.constprop.0 () from /lib64/libpython3.13.so.1.0 #7 0x0000fffff7c2e938 [PAC] in Py_RunMain () from /lib64/libpython3.13.so.1.0 #8 0x0000fffff7bc0160 [PAC] in Py_BytesMain () from /lib64/libpython3.13.so.1.0 #9 0x0000fffff78362dc [PAC] in __libc_start_call_main () from /lib64/libc.so.6 #10 0x0000fffff78363bc [PAC] in __libc_start_main_impl () from /lib64/libc.so.6 #11 0x0000aaaaaaab00f0 [PAC] in _start () Writing options to file mini/BOUT.settings Option time_report:show = 0 (default) Thread 1 "python3" hit Breakpoint 1, 0x0000fffff41d9348 in PMPI_Finalize () from /usr/lib64/mpich/lib/libmpi.so.12 FINALIZING!!!![Thread 0xffffe2d4f180 (LWP 17393) exited] [Thread 0xffffe253f180 (LWP 17394) exited] HDF5-DIAG: Error detected in HDF5 (1.14.5): #000: ../../src/H5FD.c line 368 in H5FDunregister(): not a file driver major: Invalid arguments to routine minor: Inappropriate type [Inferior 1 (process 17391) exited normally] + popd ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/build_mpich ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f ~/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f + popd + '[' mpich = mpich ']' + . /etc/profile.d/modules.sh ++ '[' -n /bin/sh ']' ++ '[' sh = sh ']' ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ unset _mlshdbg +++ '[' 0 = 1 ']' +++ export 'MODULES_RUN_QUARANTINE=LD_LIBRARY_PATH LD_PRELOAD' +++ MODULES_RUN_QUARANTINE='LD_LIBRARY_PATH LD_PRELOAD' +++ unset _mlre _mlIFS +++ '[' -n x ']' +++ _mlIFS=' ' +++ IFS=' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' +++ '[' LD_LIBRARY_PATH = LD_LIBRARY_PATH ']' ++++ eval 'echo ${LD_LIBRARY_PATH+x}' +++++ echo x +++ '[' -n x ']' ++++ eval 'echo ${LD_LIBRARY_PATH}' +++++ echo /usr/lib64/mpich/lib +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' ' +++ _mlrv=MODULES_RUNENV_LD_LIBRARY_PATH ++++ eval 'echo ${MODULES_RUNENV_LD_LIBRARY_PATH:-}' +++++ echo +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' ' +++ for _mlv in ${MODULES_RUN_QUARANTINE:-} +++ '[' LD_PRELOAD = LD_PRELOAD ']' +++ '[' LD_PRELOAD = LD_PRELOAD ']' ++++ eval 'echo ${LD_PRELOAD+x}' +++++ echo +++ '[' -n '' ']' +++ _mlrv=MODULES_RUNENV_LD_PRELOAD ++++ eval 'echo ${MODULES_RUNENV_LD_PRELOAD:-}' +++++ echo +++ _mlre='__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' +++ '[' -n '__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' ' ']' +++ _mlre='eval __MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\'' LD_LIBRARY_PATH='\'''\'' LD_PRELOAD='\'''\'' __MODULES_QUARANTINE_SET=1 ' ++++ eval '__MODULES_QUAR_LD_LIBRARY_PATH='\''/usr/lib64/mpich/lib'\''' 'LD_LIBRARY_PATH='\'''\''' 'LD_PRELOAD='\'''\''' __MODULES_QUARANTINE_SET=1 /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++++ __MODULES_QUAR_LD_LIBRARY_PATH=/usr/lib64/mpich/lib +++++ LD_LIBRARY_PATH= +++++ LD_PRELOAD= +++++ __MODULES_QUARANTINE_SET=1 +++++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh autoinit +++ _mlcode='_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' +++ _mlret=0 +++ '[' -n x ']' +++ IFS=' ' +++ unset _mlIFS +++ unset _mlre _mlv _mlrv +++ '[' 0 -eq 0 ']' +++ eval '_module_raw() { eval "$(/usr/bin/tclsh '\''/usr/share/Modules/libexec/modulecmd.tcl'\'' sh "$@")"; _mlstatus=$?; return $_mlstatus; }; module() { local _mlredir=0; if [ -n "${MODULES_REDIRECT_OUTPUT+x}" ]; then if [ "$MODULES_REDIRECT_OUTPUT" = '\''0'\'' ]; then _mlredir=0; elif [ "$MODULES_REDIRECT_OUTPUT" = '\''1'\'' ]; then _mlredir=1; fi; fi; case " $@ " in *'\'' --no-redirect '\''*) _mlredir=0 ;; *'\'' --redirect '\''*) _mlredir=1 ;; esac; if [ $_mlredir -eq 0 ]; then _module_raw "$@"; else _module_raw "$@" 2>&1; fi; }; ml() { module ml "$@"; }; MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl; export MODULES_CMD; unset __MODULES_AUTOINIT_INPROGRESS; MODULESHOME=/usr/share/Modules; export MODULESHOME; test 0;' ++++ MODULES_CMD=/usr/share/Modules/libexec/modulecmd.tcl ++++ export MODULES_CMD ++++ unset __MODULES_AUTOINIT_INPROGRESS ++++ MODULESHOME=/usr/share/Modules ++++ export MODULESHOME ++++ test 0 +++ '[' /bin/sh '!=' '' ']' +++ export -f _module_raw +++ export -f module ++++ type -t ml +++ '[' function = function ']' +++ export -f ml +++ unset _mlcode _mlret +++ '[' -n '' ']' + module unload mpi/mpich-aarch64 + local _mlredir=0 + '[' -n '' ']' + case " $@ " in + '[' 0 -eq 0 ']' + _module_raw unload mpi/mpich-aarch64 ++ /usr/bin/tclsh /usr/share/Modules/libexec/modulecmd.tcl sh unload mpi/mpich-aarch64 + eval 'unset LD_LIBRARY_PATH; unset MPI_COMPILER; MANPATH=/usr/share/man:; export MANPATH; unset MPI_INCLUDE; unset MPI_MAN; unset MPI_PYTHON_SITEARCH; unset _LMFILES_; unset LOADEDMODULES; PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig; export PKG_CONFIG_PATH; unset MPI_PYTHON3_SITEARCH; unset MPI_FORTRAN_MOD_DIR; unset MPI_HOME; unset __MODULES_LMCONFLICT; __MODULES_SHARE_MANPATH=:1; export __MODULES_SHARE_MANPATH; unset MPI_SYSCONFIG; unset MPI_SUFFIX; __MODULES_SHARE_PKG_CONFIG_PATH=:1; export __MODULES_SHARE_PKG_CONFIG_PATH; unset MPI_PYTHON2_SITEARCH; unset MPI_LIB; PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin; export PATH; unset MPI_BIN; test 0;' ++ unset LD_LIBRARY_PATH ++ unset MPI_COMPILER ++ MANPATH=/usr/share/man: ++ export MANPATH ++ unset MPI_INCLUDE ++ unset MPI_MAN ++ unset MPI_PYTHON_SITEARCH ++ unset _LMFILES_ ++ unset LOADEDMODULES ++ PKG_CONFIG_PATH=:/usr/lib64/pkgconfig:/usr/share/pkgconfig ++ export PKG_CONFIG_PATH ++ unset MPI_PYTHON3_SITEARCH ++ unset MPI_FORTRAN_MOD_DIR ++ unset MPI_HOME ++ unset __MODULES_LMCONFLICT ++ __MODULES_SHARE_MANPATH=:1 ++ export __MODULES_SHARE_MANPATH ++ unset MPI_SYSCONFIG ++ unset MPI_SUFFIX ++ __MODULES_SHARE_PKG_CONFIG_PATH=:1 ++ export __MODULES_SHARE_PKG_CONFIG_PATH ++ unset MPI_PYTHON2_SITEARCH ++ unset MPI_LIB ++ PATH=/usr/share/Modules/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin ++ export PATH ++ unset MPI_BIN ++ test 0 + _mlstatus=0 + return 0 + RPM_EC=0 ++ jobs -p + exit 0 Processing files: bout++-mpich-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.enMGxL + umask 022 + cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + cd BOUT++-v5.2.0.dev574+ge3f21cd2f + DOCDIR=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-mpich + export LC_ALL=C.UTF-8 + LC_ALL=C.UTF-8 + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-mpich + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/README.md /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-mpich + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/CITATION.bib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-mpich + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/CITATION.cff /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-mpich + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/CHANGELOG.md /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-mpich + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/CONTRIBUTING.md /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-mpich + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.gLxwYz + umask 022 + cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + cd BOUT++-v5.2.0.dev574+ge3f21cd2f + LICENSEDIR=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/licenses/bout++-mpich + export LC_ALL=C.UTF-8 + LC_ALL=C.UTF-8 + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/licenses/bout++-mpich + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/LICENSE /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/licenses/bout++-mpich + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/LICENSE.GPL /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/licenses/bout++-mpich + RPM_EC=0 ++ jobs -p + exit 0 Provides: bout++-mpich = 5.2.0.dev574+ge3f21cd2f-1.fc42 bout++-mpich(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 bundled(libpvode) libbout++.so.5.1.0()(64bit)(mpich-aarch64) libpvode.so.1.0.0()(64bit)(mpich-aarch64) libpvpre.so.1.0.0()(64bit)(mpich-aarch64) Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/bash /usr/bin/python3 /usr/bin/sh ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_ABI_DT_RELR)(64bit) libfftw3.so.3()(64bit) libflexiblas.so.3()(64bit) libfmt.so.11()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.17)(64bit) libm.so.6(GLIBC_2.29)(64bit) libm.so.6(GLIBC_2.38)(64bit) libmpi.so.12()(64bit)(mpich-aarch64) libnetcdf.so.19()(64bit) libnetcdf_c++4.so.1()(64bit) libpetsc.so.3.22()(64bit)(mpich-aarch64) libpvode.so.1.0.0()(64bit)(mpich-aarch64) libpvpre.so.1.0.0()(64bit)(mpich-aarch64) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.15)(64bit) libstdc++.so.6(CXXABI_1.3.5)(64bit) libstdc++.so.6(CXXABI_1.3.8)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.14)(64bit) libstdc++.so.6(GLIBCXX_3.4.15)(64bit) libstdc++.so.6(GLIBCXX_3.4.18)(64bit) libstdc++.so.6(GLIBCXX_3.4.19)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.22)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.30)(64bit) libstdc++.so.6(GLIBCXX_3.4.32)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) libsundials_arkode.so.6()(64bit)(mpich-aarch64) libsundials_core.so.7()(64bit)(mpich-aarch64) libsundials_cvode.so.7()(64bit)(mpich-aarch64) libsundials_ida.so.7()(64bit)(mpich-aarch64) libsundials_nvecparallel.so.7()(64bit)(mpich-aarch64) rtld(GNU_HASH) Recommends: environment-modules python3-boutdata python3-boututils python3-xbout Processing files: bout++-mpich-devel-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 Provides: bout++-mpich-devel = 5.2.0.dev574+ge3f21cd2f-1.fc42 bout++-mpich-devel(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: fftw-devel flexiblas-devel gcc-c++ gettext-devel hdf5-devel hdf5-mpich-devel make mpark-variant-devel mpich-devel netcdf-cxx4-devel netcdf-devel petsc-mpich-devel sundials-devel sundials-mpich-devel zlib-devel Processing files: python3-bout++-mpich-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 Provides: libboutpp.cpython-313-aarch64-linux-gnu.so()(64bit)(mpich-aarch64) python-bout++-mpich = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3-bout++-mpich = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3-bout++-mpich(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3.13-bout++-mpich = 5.2.0.dev574+ge3f21cd2f-1.fc42 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PartialHardlinkSets) <= 4.0.4-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libbout++.so.5.1.0()(64bit)(mpich-aarch64) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_ABI_DT_RELR)(64bit) libfmt.so.11()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.17)(64bit) libm.so.6(GLIBC_2.29)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.15)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.14)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.22)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.30)(64bit) libstdc++.so.6(GLIBCXX_3.4.32)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) python(abi) = 3.13 rtld(GNU_HASH) Recommends: python3-xbout Processing files: bout++-openmpi-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.ocuDgw + umask 022 + cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + cd BOUT++-v5.2.0.dev574+ge3f21cd2f + DOCDIR=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-openmpi + export LC_ALL=C.UTF-8 + LC_ALL=C.UTF-8 + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-openmpi + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/README.md /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-openmpi + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/CITATION.bib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-openmpi + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/CITATION.cff /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-openmpi + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/CHANGELOG.md /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-openmpi + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/CONTRIBUTING.md /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/bout++-openmpi + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.62kAnK + umask 022 + cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + cd BOUT++-v5.2.0.dev574+ge3f21cd2f + LICENSEDIR=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/licenses/bout++-openmpi + export LC_ALL=C.UTF-8 + LC_ALL=C.UTF-8 + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/licenses/bout++-openmpi + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/LICENSE /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/licenses/bout++-openmpi + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/LICENSE.GPL /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/licenses/bout++-openmpi + RPM_EC=0 ++ jobs -p + exit 0 Provides: bout++-openmpi = 5.2.0.dev574+ge3f21cd2f-1.fc42 bout++-openmpi(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 bundled(libpvode) libbout++.so.5.1.0()(64bit)(openmpi-aarch64) libpvode.so.1.0.0()(64bit)(openmpi-aarch64) libpvpre.so.1.0.0()(64bit)(openmpi-aarch64) Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/bash /usr/bin/python3 /usr/bin/sh ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_ABI_DT_RELR)(64bit) libfftw3.so.3()(64bit) libflexiblas.so.3()(64bit) libfmt.so.11()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.17)(64bit) libm.so.6(GLIBC_2.29)(64bit) libm.so.6(GLIBC_2.38)(64bit) libmpi.so.40()(64bit)(openmpi-aarch64) libnetcdf.so.19()(64bit) libnetcdf_c++4.so.1()(64bit) libpetsc.so.3.22()(64bit)(openmpi-aarch64) libpvode.so.1.0.0()(64bit)(openmpi-aarch64) libpvpre.so.1.0.0()(64bit)(openmpi-aarch64) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.15)(64bit) libstdc++.so.6(CXXABI_1.3.5)(64bit) libstdc++.so.6(CXXABI_1.3.8)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.14)(64bit) libstdc++.so.6(GLIBCXX_3.4.15)(64bit) libstdc++.so.6(GLIBCXX_3.4.18)(64bit) libstdc++.so.6(GLIBCXX_3.4.19)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.22)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.30)(64bit) libstdc++.so.6(GLIBCXX_3.4.32)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) libsundials_arkode.so.6()(64bit)(openmpi-aarch64) libsundials_core.so.7()(64bit)(openmpi-aarch64) libsundials_cvode.so.7()(64bit)(openmpi-aarch64) libsundials_ida.so.7()(64bit)(openmpi-aarch64) libsundials_nvecparallel.so.7()(64bit)(openmpi-aarch64) rtld(GNU_HASH) Recommends: environment-modules python3-boutdata python3-boututils python3-xbout Processing files: bout++-openmpi-devel-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 Provides: bout++-openmpi-devel = 5.2.0.dev574+ge3f21cd2f-1.fc42 bout++-openmpi-devel(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: fftw-devel flexiblas-devel gcc-c++ gettext-devel hdf5-devel hdf5-openmpi-devel make mpark-variant-devel netcdf-cxx4-devel netcdf-devel openmpi-devel petsc-openmpi-devel sundials-devel sundials-openmpi-devel zlib-devel Processing files: python3-bout++-openmpi-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 Provides: libboutpp.cpython-313-aarch64-linux-gnu.so()(64bit)(openmpi-aarch64) python-bout++-openmpi = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3-bout++-openmpi = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3-bout++-openmpi(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3.13-bout++-openmpi = 5.2.0.dev574+ge3f21cd2f-1.fc42 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PartialHardlinkSets) <= 4.0.4-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libbout++.so.5.1.0()(64bit)(openmpi-aarch64) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_ABI_DT_RELR)(64bit) libfmt.so.11()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.17)(64bit) libm.so.6(GLIBC_2.29)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.15)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.14)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.22)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.30)(64bit) libstdc++.so.6(GLIBCXX_3.4.32)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) python(abi) = 3.13 rtld(GNU_HASH) Recommends: python3-xbout Processing files: bout++-common-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 Provides: bout++-common = 5.2.0.dev574+ge3f21cd2f-1.fc42 bout++-common(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: python3-bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.noarch Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.QSzQZw + umask 022 + cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + cd BOUT++-v5.2.0.dev574+ge3f21cd2f + DOCDIR=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/python3-bout++ + export LC_ALL=C.UTF-8 + LC_ALL=C.UTF-8 + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/python3-bout++ + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/README.md /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/python3-bout++ + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/CITATION.bib /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/python3-bout++ + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/CITATION.cff /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/python3-bout++ + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/CHANGELOG.md /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/python3-bout++ + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/CONTRIBUTING.md /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/doc/python3-bout++ + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.Opae9b + umask 022 + cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + cd BOUT++-v5.2.0.dev574+ge3f21cd2f + LICENSEDIR=/builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/licenses/python3-bout++ + export LC_ALL=C.UTF-8 + LC_ALL=C.UTF-8 + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/licenses/python3-bout++ + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/LICENSE /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/licenses/python3-bout++ + cp -pr /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BOUT++-v5.2.0.dev574+ge3f21cd2f/LICENSE.GPL /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT/usr/share/licenses/python3-bout++ + RPM_EC=0 ++ jobs -p + exit 0 Provides: python-bout++ = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3-bout++ = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3.13-bout++ = 5.2.0.dev574+ge3f21cd2f-1.fc42 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: python3-boutdata python3-boututils python3-matplotlib python3-scipy Processing files: bout++-doc-5.2.0.dev574+ge3f21cd2f-1.fc42.noarch Provides: bout++-doc = 5.2.0.dev574+ge3f21cd2f-1.fc42 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: bout++-debugsource-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 Provides: bout++-debugsource = 5.2.0.dev574+ge3f21cd2f-1.fc42 bout++-debugsource(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: bout++-debuginfo-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 Provides: bout++-debuginfo = 5.2.0.dev574+ge3f21cd2f-1.fc42 bout++-debuginfo(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: bout++-debugsource(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 Processing files: bout++-mpich-debuginfo-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 Provides: bout++-mpich-debuginfo = 5.2.0.dev574+ge3f21cd2f-1.fc42 bout++-mpich-debuginfo(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 debuginfo(build-id) = 03dc539425d0e2b4a7660432be1976b3065faa40 debuginfo(build-id) = 0d66a3e7afed37b615c5a50adb625e8f3c8f98fe debuginfo(build-id) = 7a3641e7beabd056a760e5d3d160fe658874c51e Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: bout++-debugsource(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 Processing files: python3-bout++-mpich-debuginfo-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 Provides: debuginfo(build-id) = 7a7bbbd0b0654f0c9d79d2ff81e4dad1c9b6ff6c python-bout++-mpich-debuginfo = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3-bout++-mpich-debuginfo = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3-bout++-mpich-debuginfo(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3.13-bout++-mpich-debuginfo = 5.2.0.dev574+ge3f21cd2f-1.fc42 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: bout++-debugsource(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 Processing files: bout++-openmpi-debuginfo-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 Provides: bout++-openmpi-debuginfo = 5.2.0.dev574+ge3f21cd2f-1.fc42 bout++-openmpi-debuginfo(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 debuginfo(build-id) = a4ffc2708b20bd406072a46ac386d5fca89d84ca debuginfo(build-id) = ee7ba8a7388752da521b80ca0e7fe99fa1f56ca9 debuginfo(build-id) = f4441a90cc5218af3cac073485400311534b84bd Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: bout++-debugsource(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 Processing files: python3-bout++-openmpi-debuginfo-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64 Provides: debuginfo(build-id) = 2ec68c16b60e7da0aebaf874b2cbe84a7f68f6a1 python-bout++-openmpi-debuginfo = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3-bout++-openmpi-debuginfo = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3-bout++-openmpi-debuginfo(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 python3.13-bout++-openmpi-debuginfo = 5.2.0.dev574+ge3f21cd2f-1.fc42 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: bout++-debugsource(aarch-64) = 5.2.0.dev574+ge3f21cd2f-1.fc42 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build/BUILDROOT Wrote: /builddir/build/RPMS/bout++-debugsource-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64.rpm Wrote: /builddir/build/RPMS/python3-bout++-openmpi-debuginfo-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64.rpm Wrote: /builddir/build/RPMS/bout++-debuginfo-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64.rpm Wrote: /builddir/build/RPMS/python3-bout++-mpich-debuginfo-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64.rpm Wrote: /builddir/build/RPMS/bout++-openmpi-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64.rpm Wrote: /builddir/build/RPMS/bout++-doc-5.2.0.dev574+ge3f21cd2f-1.fc42.noarch.rpm Wrote: /builddir/build/RPMS/bout++-openmpi-devel-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64.rpm Wrote: /builddir/build/RPMS/bout++-mpich-devel-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64.rpm Wrote: /builddir/build/RPMS/python3-bout++-openmpi-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64.rpm Wrote: /builddir/build/RPMS/python3-bout++-mpich-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64.rpm Wrote: /builddir/build/RPMS/bout++-mpich-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64.rpm Wrote: /builddir/build/RPMS/bout++-common-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64.rpm Wrote: /builddir/build/RPMS/python3-bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.noarch.rpm Wrote: /builddir/build/RPMS/bout++-mpich-debuginfo-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64.rpm Wrote: /builddir/build/RPMS/bout++-openmpi-debuginfo-5.2.0.dev574+ge3f21cd2f-1.fc42.aarch64.rpm Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.Huu0Yb + umask 022 + cd /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + test -d /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + rm -rf /builddir/build/BUILD/bout++-5.2.0.dev574+ge3f21cd2f-build + RPM_EC=0 ++ jobs -p + exit 0 Finish: rpmbuild bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.src.rpm Finish: build phase for bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.src.rpm INFO: chroot_scan: 1 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-rawhide-aarch64-1733757126.396670/root/var/log/dnf5.log INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz /bin/tar: Removing leading `/' from member names INFO: Done(/var/lib/copr-rpmbuild/results/bout++-5.2.0.dev574+ge3f21cd2f-1.fc42.src.rpm) Config(child) 57 minutes 59 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot Finish: run Running RPMResults tool Package info: { "packages": [ { "name": "bout++-mpich", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "aarch64" }, { "name": "python3-bout++-openmpi", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "aarch64" }, { "name": "bout++-common", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "aarch64" }, { "name": "bout++-openmpi-debuginfo", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "aarch64" }, { "name": "python3-bout++", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "noarch" }, { "name": "bout++-doc", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "noarch" }, { "name": "bout++-openmpi", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "aarch64" }, { "name": "python3-bout++-openmpi-debuginfo", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "aarch64" }, { "name": "bout++-mpich-debuginfo", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "aarch64" }, { "name": "python3-bout++-mpich", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "aarch64" }, { "name": "bout++-openmpi-devel", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "aarch64" }, { "name": "bout++-mpich-devel", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "aarch64" }, { "name": "bout++-debuginfo", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "aarch64" }, { "name": "bout++-debugsource", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "aarch64" }, { "name": "bout++", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "src" }, { "name": "python3-bout++-mpich-debuginfo", "epoch": null, "version": "5.2.0.dev574+ge3f21cd2f", "release": "1.fc42", "arch": "aarch64" } ] } RPMResults finished